-- dump date 20140620_003512 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1280938000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1280938000002 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 1280938000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1280938000004 Walker A motif; other site 1280938000005 ATP binding site [chemical binding]; other site 1280938000006 Walker B motif; other site 1280938000007 arginine finger; other site 1280938000008 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 1280938000009 DnaA box-binding interface [nucleotide binding]; other site 1280938000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1280938000011 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 1280938000012 putative DNA binding surface [nucleotide binding]; other site 1280938000013 dimer interface [polypeptide binding]; other site 1280938000014 beta-clamp/clamp loader binding surface; other site 1280938000015 beta-clamp/translesion DNA polymerase binding surface; other site 1280938000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1280938000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938000018 Walker A/P-loop; other site 1280938000019 ATP binding site [chemical binding]; other site 1280938000020 Q-loop/lid; other site 1280938000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938000022 ABC transporter signature motif; other site 1280938000023 Walker B; other site 1280938000024 D-loop; other site 1280938000025 H-loop/switch region; other site 1280938000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1280938000027 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 1280938000028 Mg2+ binding site [ion binding]; other site 1280938000029 G-X-G motif; other site 1280938000030 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 1280938000031 anchoring element; other site 1280938000032 dimer interface [polypeptide binding]; other site 1280938000033 ATP binding site [chemical binding]; other site 1280938000034 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 1280938000035 active site 1280938000036 putative metal-binding site [ion binding]; other site 1280938000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1280938000038 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1280938000039 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1280938000040 putative acyl-acceptor binding pocket; other site 1280938000041 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1280938000042 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 1280938000043 active site 1280938000044 motif I; other site 1280938000045 motif II; other site 1280938000046 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1280938000047 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 1280938000048 dimer interface [polypeptide binding]; other site 1280938000049 motif 1; other site 1280938000050 active site 1280938000051 motif 2; other site 1280938000052 motif 3; other site 1280938000053 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1280938000054 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1280938000055 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1280938000056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1280938000057 putative acyl-acceptor binding pocket; other site 1280938000058 hypothetical protein; Provisional; Region: PRK11212 1280938000059 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 1280938000060 TPR motif; other site 1280938000061 TPR repeat; Region: TPR_11; pfam13414 1280938000062 binding surface 1280938000063 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1280938000064 TrkA-N domain; Region: TrkA_N; pfam02254 1280938000065 TrkA-C domain; Region: TrkA_C; pfam02080 1280938000066 TrkA-N domain; Region: TrkA_N; pfam02254 1280938000067 TrkA-C domain; Region: TrkA_C; pfam02080 1280938000068 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1280938000069 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 1280938000070 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 1280938000071 S-adenosylmethionine binding site [chemical binding]; other site 1280938000072 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1280938000073 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1280938000074 putative active site [active] 1280938000075 substrate binding site [chemical binding]; other site 1280938000076 putative cosubstrate binding site; other site 1280938000077 catalytic site [active] 1280938000078 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1280938000079 substrate binding site [chemical binding]; other site 1280938000080 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 1280938000081 active site 1280938000082 catalytic residues [active] 1280938000083 metal binding site [ion binding]; metal-binding site 1280938000084 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1280938000085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938000086 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1280938000087 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1280938000088 DNA protecting protein DprA; Region: dprA; TIGR00732 1280938000089 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1280938000090 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1280938000091 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1280938000092 NADP binding site [chemical binding]; other site 1280938000093 dimer interface [polypeptide binding]; other site 1280938000094 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1280938000095 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1280938000096 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1280938000097 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1280938000098 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1280938000099 shikimate binding site; other site 1280938000100 NAD(P) binding site [chemical binding]; other site 1280938000101 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 1280938000102 Zn binding site [ion binding]; other site 1280938000103 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1280938000104 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1280938000105 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1280938000106 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1280938000107 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1280938000108 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 1280938000109 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1280938000110 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1280938000111 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1280938000112 Sulfatase; Region: Sulfatase; cl17466 1280938000113 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1280938000114 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1280938000115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000116 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 1280938000117 dimerization interface [polypeptide binding]; other site 1280938000118 substrate binding pocket [chemical binding]; other site 1280938000119 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1280938000120 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 1280938000121 putative binding surface; other site 1280938000122 active site 1280938000123 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938000124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938000125 active site 1280938000126 phosphorylation site [posttranslational modification] 1280938000127 intermolecular recognition site; other site 1280938000128 dimerization interface [polypeptide binding]; other site 1280938000129 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 1280938000130 DNA binding residues [nucleotide binding] 1280938000131 dimerization interface [polypeptide binding]; other site 1280938000132 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 1280938000133 substrate binding site [chemical binding]; other site 1280938000134 active site 1280938000135 catalytic residues [active] 1280938000136 heterodimer interface [polypeptide binding]; other site 1280938000137 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1280938000138 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 1280938000139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938000140 catalytic residue [active] 1280938000141 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938000142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000143 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 1280938000144 dimerization interface [polypeptide binding]; other site 1280938000145 Dodecin; Region: Dodecin; pfam07311 1280938000146 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1280938000147 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1280938000148 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1280938000149 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1280938000150 potential frameshift: common BLAST hit: gi|386056113|ref|YP_005972635.1| putative hemagglutinin 1280938000151 Predicted membrane protein [Function unknown]; Region: COG3174 1280938000152 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1280938000153 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 1280938000154 GTPase-activating protein (GAP) domain found in bacterial cytotoxins, ExoS, SptP, and YopE. Part of protein secretion system; stimulates Rac1- dependent cytoskeletal changes that promote bacterial internalization; Region: ToxGAP; cd00219 1280938000155 switch II binding region; other site 1280938000156 Rac1 P-loop interaction site [polypeptide binding]; other site 1280938000157 GTP binding residues [chemical binding]; other site 1280938000158 switch I binding region; other site 1280938000159 ADP-ribosyltransferase exoenzyme; Region: ADPrib_exo_Tox; pfam03496 1280938000160 active site 1280938000161 conformational flexibility of ligand binding pocket; other site 1280938000162 ADP-ribosylating toxin turn-turn motif; other site 1280938000163 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 1280938000164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1280938000165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 1280938000166 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 1280938000167 sequence-specific DNA binding site [nucleotide binding]; other site 1280938000168 salt bridge; other site 1280938000169 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 1280938000170 active site 1280938000171 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1280938000172 dimer interface [polypeptide binding]; other site 1280938000173 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 1280938000174 Ligand Binding Site [chemical binding]; other site 1280938000175 Molecular Tunnel; other site 1280938000176 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1280938000177 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 1280938000178 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 1280938000179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3812 1280938000180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000182 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 1280938000183 putative effector binding pocket; other site 1280938000184 dimerization interface [polypeptide binding]; other site 1280938000185 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1280938000186 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1280938000187 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 1280938000188 catalytic residues [active] 1280938000189 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1280938000190 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1280938000191 Predicted aminopeptidase [General function prediction only]; Region: COG4324 1280938000192 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1280938000193 Eukaryotic phosphomannomutase; Region: PMM; cl17107 1280938000194 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 1280938000195 motif II; other site 1280938000196 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1280938000197 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 1280938000198 trimer interface [polypeptide binding]; other site 1280938000199 putative metal binding site [ion binding]; other site 1280938000200 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1280938000201 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1280938000202 active site 1280938000203 Zn binding site [ion binding]; other site 1280938000204 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1280938000205 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1280938000206 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 1280938000207 FeS/SAM binding site; other site 1280938000208 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1280938000209 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1280938000210 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1280938000211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938000212 Walker A/P-loop; other site 1280938000213 ATP binding site [chemical binding]; other site 1280938000214 Q-loop/lid; other site 1280938000215 ABC transporter signature motif; other site 1280938000216 Walker B; other site 1280938000217 D-loop; other site 1280938000218 H-loop/switch region; other site 1280938000219 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1280938000220 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1280938000221 active site 1280938000222 ATP binding site [chemical binding]; other site 1280938000223 substrate binding site [chemical binding]; other site 1280938000224 activation loop (A-loop); other site 1280938000225 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 1280938000226 metal ion-dependent adhesion site (MIDAS); other site 1280938000227 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 1280938000228 active site 1280938000229 Protein phosphatase 2C; Region: PP2C; pfam00481 1280938000230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SciT; COG3913 1280938000231 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1280938000232 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1280938000233 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1280938000234 hypothetical protein; Provisional; Region: PRK07033 1280938000235 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1280938000236 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938000237 ligand binding site [chemical binding]; other site 1280938000238 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1280938000239 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1280938000240 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 1280938000241 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 1280938000242 phosphopeptide binding site; other site 1280938000243 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1280938000244 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1280938000245 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1280938000246 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1280938000247 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1280938000248 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1280938000249 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1280938000250 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 1280938000251 ImpE protein; Region: ImpE; pfam07024 1280938000252 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 1280938000253 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1280938000254 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1280938000255 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1280938000256 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1280938000257 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 1280938000258 Walker A motif; other site 1280938000259 ATP binding site [chemical binding]; other site 1280938000260 Walker B motif; other site 1280938000261 arginine finger; other site 1280938000262 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 1280938000263 Walker A motif; other site 1280938000264 ATP binding site [chemical binding]; other site 1280938000265 Walker B motif; other site 1280938000266 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1280938000267 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938000268 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938000269 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938000270 PAAR motif; Region: PAAR_motif; pfam05488 1280938000271 Uncharacterized conserved protein [Function unknown]; Region: COG5435 1280938000272 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938000273 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938000274 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938000275 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1280938000276 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1280938000277 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1280938000278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5351 1280938000279 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 1280938000280 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1280938000281 conserved hypothetical protein; Region: TIGR02270 1280938000282 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 1280938000283 active site clefts [active] 1280938000284 zinc binding site [ion binding]; other site 1280938000285 dimer interface [polypeptide binding]; other site 1280938000286 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1280938000287 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1280938000288 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1280938000289 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1280938000290 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1280938000291 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1280938000292 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1280938000293 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938000294 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938000295 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1280938000296 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 1280938000297 Subunit I/III interface [polypeptide binding]; other site 1280938000298 D-pathway; other site 1280938000299 Subunit I/VIIc interface [polypeptide binding]; other site 1280938000300 Subunit I/IV interface [polypeptide binding]; other site 1280938000301 Subunit I/II interface [polypeptide binding]; other site 1280938000302 Low-spin heme (heme a) binding site [chemical binding]; other site 1280938000303 Subunit I/VIIa interface [polypeptide binding]; other site 1280938000304 Subunit I/VIa interface [polypeptide binding]; other site 1280938000305 Dimer interface; other site 1280938000306 Putative water exit pathway; other site 1280938000307 Binuclear center (heme a3/CuB) [ion binding]; other site 1280938000308 K-pathway; other site 1280938000309 Subunit I/Vb interface [polypeptide binding]; other site 1280938000310 Putative proton exit pathway; other site 1280938000311 Subunit I/VIb interface; other site 1280938000312 Subunit I/VIc interface [polypeptide binding]; other site 1280938000313 Electron transfer pathway; other site 1280938000314 Subunit I/VIIIb interface [polypeptide binding]; other site 1280938000315 Subunit I/VIIb interface [polypeptide binding]; other site 1280938000316 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1280938000317 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 1280938000318 Subunit III/VIIa interface [polypeptide binding]; other site 1280938000319 Phospholipid binding site [chemical binding]; other site 1280938000320 Subunit I/III interface [polypeptide binding]; other site 1280938000321 Subunit III/VIb interface [polypeptide binding]; other site 1280938000322 Subunit III/VIa interface; other site 1280938000323 Subunit III/Vb interface [polypeptide binding]; other site 1280938000324 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1280938000325 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 1280938000326 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1280938000327 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1280938000328 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1280938000329 UbiA prenyltransferase family; Region: UbiA; pfam01040 1280938000330 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 1280938000331 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1280938000332 Cu(I) binding site [ion binding]; other site 1280938000333 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1280938000334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938000335 Coenzyme A binding pocket [chemical binding]; other site 1280938000336 Predicted transcriptional regulators [Transcription]; Region: COG1733 1280938000337 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1280938000338 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1280938000339 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1280938000340 putative NAD(P) binding site [chemical binding]; other site 1280938000341 active site 1280938000342 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1280938000343 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 1280938000344 putative catalytic residue [active] 1280938000345 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1280938000346 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1280938000347 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1280938000348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938000349 DNA-binding site [nucleotide binding]; DNA binding site 1280938000350 FCD domain; Region: FCD; pfam07729 1280938000351 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1280938000352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1280938000353 DNA-binding site [nucleotide binding]; DNA binding site 1280938000354 FCD domain; Region: FCD; pfam07729 1280938000355 Aegerolysin; Region: Aegerolysin; pfam06355 1280938000356 transcriptional regulator; Provisional; Region: PRK10632 1280938000357 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000358 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 1280938000359 putative effector binding pocket; other site 1280938000360 dimerization interface [polypeptide binding]; other site 1280938000361 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1280938000362 Predicted transcriptional regulator [Transcription]; Region: COG3905 1280938000363 Water Stress and Hypersensitive response; Region: WHy; smart00769 1280938000364 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1280938000365 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1280938000366 PhnA protein; Region: PhnA; pfam03831 1280938000367 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1280938000368 Spore germination protein; Region: Spore_permease; cl17796 1280938000369 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1280938000370 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1280938000371 tetrameric interface [polypeptide binding]; other site 1280938000372 NAD binding site [chemical binding]; other site 1280938000373 catalytic residues [active] 1280938000374 Cupin domain; Region: Cupin_2; cl17218 1280938000375 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1280938000376 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 1280938000377 inhibitor-cofactor binding pocket; inhibition site 1280938000378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938000379 catalytic residue [active] 1280938000380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000382 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938000383 dimerization interface [polypeptide binding]; other site 1280938000384 guanine deaminase; Provisional; Region: PRK09228 1280938000385 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 1280938000386 active site 1280938000387 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1280938000388 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1280938000389 Walker A/P-loop; other site 1280938000390 ATP binding site [chemical binding]; other site 1280938000391 Q-loop/lid; other site 1280938000392 ABC transporter signature motif; other site 1280938000393 Walker B; other site 1280938000394 D-loop; other site 1280938000395 H-loop/switch region; other site 1280938000396 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1280938000397 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1280938000398 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1280938000399 TM-ABC transporter signature motif; other site 1280938000400 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1280938000401 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1280938000402 TM-ABC transporter signature motif; other site 1280938000403 peroxiredoxin; Region: AhpC; TIGR03137 1280938000404 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 1280938000405 dimer interface [polypeptide binding]; other site 1280938000406 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1280938000407 catalytic triad [active] 1280938000408 peroxidatic and resolving cysteines [active] 1280938000409 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1280938000410 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 1280938000411 catalytic residue [active] 1280938000412 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 1280938000413 catalytic residues [active] 1280938000414 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938000415 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938000416 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1280938000417 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1280938000418 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 1280938000419 active site 1280938000420 putative substrate binding pocket [chemical binding]; other site 1280938000421 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1280938000422 active site 1280938000423 tetramer interface [polypeptide binding]; other site 1280938000424 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 1280938000425 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1280938000426 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1280938000427 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1280938000428 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1280938000429 putative ligand binding site [chemical binding]; other site 1280938000430 oxidase reductase; Provisional; Region: PTZ00273 1280938000431 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1280938000432 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1280938000433 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1280938000434 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 1280938000435 active site 1280938000436 purine riboside binding site [chemical binding]; other site 1280938000437 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1280938000438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938000439 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 1280938000440 DNA binding residues [nucleotide binding] 1280938000441 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938000442 FecR protein; Region: FecR; pfam04773 1280938000443 potential frameshift: common BLAST hit: gi|392981563|ref|YP_006480150.1| TonB-dependent receptor 1280938000444 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1280938000445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000446 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 1280938000447 dimerization interface [polypeptide binding]; other site 1280938000448 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 1280938000449 heterodimer interface [polypeptide binding]; other site 1280938000450 multimer interface [polypeptide binding]; other site 1280938000451 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1280938000452 active site 1280938000453 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1280938000454 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 1280938000455 heterodimer interface [polypeptide binding]; other site 1280938000456 active site 1280938000457 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1280938000458 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1280938000459 Bacterial transcriptional regulator; Region: IclR; pfam01614 1280938000460 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938000461 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938000462 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938000463 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938000464 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938000465 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938000466 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1280938000467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000469 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 1280938000470 putative effector binding pocket; other site 1280938000471 dimerization interface [polypeptide binding]; other site 1280938000472 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938000473 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938000474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938000475 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938000476 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1280938000477 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1280938000478 Nucleoside-binding outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: Tsx; COG3248 1280938000479 xanthine permease; Region: pbuX; TIGR03173 1280938000480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938000481 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1280938000482 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1280938000483 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1280938000484 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1280938000485 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938000486 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938000487 metal binding site [ion binding]; metal-binding site 1280938000488 active site 1280938000489 I-site; other site 1280938000490 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 1280938000491 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 1280938000492 dimerization interface [polypeptide binding]; other site 1280938000493 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1280938000494 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1280938000495 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1280938000496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938000497 active site 1280938000498 phosphorylation site [posttranslational modification] 1280938000499 intermolecular recognition site; other site 1280938000500 dimerization interface [polypeptide binding]; other site 1280938000501 CheB methylesterase; Region: CheB_methylest; pfam01339 1280938000502 CheD chemotactic sensory transduction; Region: CheD; cl00810 1280938000503 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1280938000504 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1280938000505 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1280938000506 PAS domain; Region: PAS; smart00091 1280938000507 PAS domain; Region: PAS_9; pfam13426 1280938000508 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938000509 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938000510 dimer interface [polypeptide binding]; other site 1280938000511 putative CheW interface [polypeptide binding]; other site 1280938000512 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1280938000513 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 1280938000514 putative binding surface; other site 1280938000515 active site 1280938000516 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1280938000517 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1280938000518 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 1280938000519 ATP binding site [chemical binding]; other site 1280938000520 G-X-G motif; other site 1280938000521 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 1280938000522 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938000523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938000524 active site 1280938000525 phosphorylation site [posttranslational modification] 1280938000526 intermolecular recognition site; other site 1280938000527 dimerization interface [polypeptide binding]; other site 1280938000528 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1280938000529 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938000530 putative CheW interface [polypeptide binding]; other site 1280938000531 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000533 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 1280938000534 putative effector binding pocket; other site 1280938000535 dimerization interface [polypeptide binding]; other site 1280938000536 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1280938000537 classical (c) SDRs; Region: SDR_c; cd05233 1280938000538 NAD(P) binding site [chemical binding]; other site 1280938000539 active site 1280938000540 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1280938000541 Sulfatase; Region: Sulfatase; pfam00884 1280938000542 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1280938000543 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1280938000544 Walker A/P-loop; other site 1280938000545 ATP binding site [chemical binding]; other site 1280938000546 Q-loop/lid; other site 1280938000547 ABC transporter signature motif; other site 1280938000548 Walker B; other site 1280938000549 D-loop; other site 1280938000550 H-loop/switch region; other site 1280938000551 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 1280938000552 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 1280938000553 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1280938000554 Uncharacterized protein family (UPF0254); Region: UPF0254; cl01641 1280938000555 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1280938000556 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 1280938000557 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938000558 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1280938000559 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1280938000560 active site 1280938000561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000563 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 1280938000564 dimerization interface [polypeptide binding]; other site 1280938000565 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938000566 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 1280938000567 N-terminal plug; other site 1280938000568 ligand-binding site [chemical binding]; other site 1280938000569 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1280938000570 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1280938000571 active site 1280938000572 iron coordination sites [ion binding]; other site 1280938000573 substrate binding pocket [chemical binding]; other site 1280938000574 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1280938000575 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1280938000576 active site 1280938000577 iron coordination sites [ion binding]; other site 1280938000578 substrate binding pocket [chemical binding]; other site 1280938000579 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1280938000580 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1280938000581 ligand binding site [chemical binding]; other site 1280938000582 homodimer interface [polypeptide binding]; other site 1280938000583 NAD(P) binding site [chemical binding]; other site 1280938000584 trimer interface B [polypeptide binding]; other site 1280938000585 trimer interface A [polypeptide binding]; other site 1280938000586 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1280938000587 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1280938000588 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1280938000589 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1280938000590 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1280938000591 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1280938000592 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1280938000593 TolR protein; Region: tolR; TIGR02801 1280938000594 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1280938000595 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1280938000596 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1280938000597 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1280938000598 Coenzyme A transferase; Region: CoA_trans; cl17247 1280938000599 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1280938000600 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1280938000601 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1280938000602 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 1280938000603 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1280938000604 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1280938000605 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1280938000606 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1280938000607 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1280938000608 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1280938000609 Malonate transporter MadL subunit; Region: MadL; cl04273 1280938000610 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1280938000611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000613 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 1280938000614 putative dimerization interface [polypeptide binding]; other site 1280938000615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000617 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 1280938000618 putative substrate binding pocket [chemical binding]; other site 1280938000619 dimerization interface [polypeptide binding]; other site 1280938000620 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1280938000621 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1280938000622 NAD(P) binding site [chemical binding]; other site 1280938000623 catalytic residues [active] 1280938000624 amino acid transporter; Region: 2A0306; TIGR00909 1280938000625 putative aminotransferase; Provisional; Region: PRK12403 1280938000626 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 1280938000627 inhibitor-cofactor binding pocket; inhibition site 1280938000628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938000629 catalytic residue [active] 1280938000630 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1280938000631 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938000632 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1280938000633 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1280938000634 inhibitor site; inhibition site 1280938000635 active site 1280938000636 dimer interface [polypeptide binding]; other site 1280938000637 catalytic residue [active] 1280938000638 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1280938000639 intersubunit interface [polypeptide binding]; other site 1280938000640 active site 1280938000641 Zn2+ binding site [ion binding]; other site 1280938000642 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1280938000643 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 1280938000644 sequence-specific DNA binding site [nucleotide binding]; other site 1280938000645 salt bridge; other site 1280938000646 Cupin domain; Region: Cupin_2; pfam07883 1280938000647 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1280938000648 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1280938000649 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1280938000650 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 1280938000651 dimer interface [polypeptide binding]; other site 1280938000652 active site 1280938000653 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1280938000654 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 1280938000655 putative substrate translocation pore; other site 1280938000656 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1280938000657 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1280938000658 tetramer interface [polypeptide binding]; other site 1280938000659 active site 1280938000660 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1280938000661 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1280938000662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000664 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 1280938000665 dimerization interface [polypeptide binding]; other site 1280938000666 benzoate transport; Region: 2A0115; TIGR00895 1280938000667 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 1280938000668 putative substrate translocation pore; other site 1280938000669 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 1280938000670 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1280938000671 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1280938000672 Bacterial transcriptional regulator; Region: IclR; pfam01614 1280938000673 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1280938000674 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1280938000675 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1280938000676 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1280938000677 EamA-like transporter family; Region: EamA; pfam00892 1280938000678 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938000679 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 1280938000680 D-galactonate transporter; Region: 2A0114; TIGR00893 1280938000681 putative substrate translocation pore; other site 1280938000682 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1280938000683 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1280938000684 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1280938000685 dimer interface [polypeptide binding]; other site 1280938000686 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1280938000687 active site 1280938000688 Fe binding site [ion binding]; other site 1280938000689 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938000690 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938000691 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1280938000692 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1280938000693 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1280938000694 shikimate binding site; other site 1280938000695 NAD(P) binding site [chemical binding]; other site 1280938000696 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 1280938000697 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1280938000698 active site 1280938000699 trimer interface [polypeptide binding]; other site 1280938000700 dimer interface [polypeptide binding]; other site 1280938000701 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 1280938000702 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938000703 putative substrate translocation pore; other site 1280938000704 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 1280938000705 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1280938000706 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938000707 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1280938000708 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938000709 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938000710 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938000711 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938000712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938000713 Coenzyme A binding pocket [chemical binding]; other site 1280938000714 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 1280938000715 FOG: CBS domain [General function prediction only]; Region: COG0517 1280938000716 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1280938000717 MarR family; Region: MarR_2; cl17246 1280938000718 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1280938000719 Predicted membrane protein [Function unknown]; Region: COG3619 1280938000720 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 1280938000721 dimerization interface [polypeptide binding]; other site 1280938000722 putative DNA binding site [nucleotide binding]; other site 1280938000723 putative Zn2+ binding site [ion binding]; other site 1280938000724 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1280938000725 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 1280938000726 cofactor binding site; other site 1280938000727 DNA binding site [nucleotide binding] 1280938000728 substrate interaction site [chemical binding]; other site 1280938000729 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1280938000730 putative active site [active] 1280938000731 AAA domain; Region: AAA_30; pfam13604 1280938000732 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1280938000733 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1280938000734 HNH endonuclease; Region: HNH_2; pfam13391 1280938000735 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 1280938000736 Helix-turn-helix domain; Region: HTH_36; pfam13730 1280938000737 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 1280938000738 active site 1280938000739 DNA binding site [nucleotide binding] 1280938000740 Int/Topo IB signature motif; other site 1280938000741 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1280938000742 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1280938000743 tetramerization interface [polypeptide binding]; other site 1280938000744 NAD(P) binding site [chemical binding]; other site 1280938000745 catalytic residues [active] 1280938000746 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1280938000747 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 1280938000748 inhibitor-cofactor binding pocket; inhibition site 1280938000749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938000750 catalytic residue [active] 1280938000751 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938000752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938000753 active site 1280938000754 phosphorylation site [posttranslational modification] 1280938000755 intermolecular recognition site; other site 1280938000756 dimerization interface [polypeptide binding]; other site 1280938000757 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1280938000758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938000759 DNA-binding site [nucleotide binding]; DNA binding site 1280938000760 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 1280938000761 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 1280938000762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938000763 homodimer interface [polypeptide binding]; other site 1280938000764 catalytic residue [active] 1280938000765 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1280938000766 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1280938000767 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1280938000768 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1280938000769 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000771 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 1280938000772 substrate binding pocket [chemical binding]; other site 1280938000773 dimerization interface [polypeptide binding]; other site 1280938000774 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1280938000775 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 1280938000776 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1280938000777 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 1280938000778 ligand binding site [chemical binding]; other site 1280938000779 flexible hinge region; other site 1280938000780 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1280938000781 Protein of unknown function (DUF962); Region: DUF962; cl01879 1280938000782 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1280938000783 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1280938000784 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 1280938000785 dimerization interface [polypeptide binding]; other site 1280938000786 putative DNA binding site [nucleotide binding]; other site 1280938000787 putative Zn2+ binding site [ion binding]; other site 1280938000788 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1280938000789 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1280938000790 Walker A/P-loop; other site 1280938000791 ATP binding site [chemical binding]; other site 1280938000792 Q-loop/lid; other site 1280938000793 ABC transporter signature motif; other site 1280938000794 Walker B; other site 1280938000795 D-loop; other site 1280938000796 H-loop/switch region; other site 1280938000797 TOBE-like domain; Region: TOBE_3; pfam12857 1280938000798 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1280938000799 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 1280938000800 dimer interface [polypeptide binding]; other site 1280938000801 conserved gate region; other site 1280938000802 putative PBP binding loops; other site 1280938000803 ABC-ATPase subunit interface; other site 1280938000804 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1280938000805 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 1280938000806 dimer interface [polypeptide binding]; other site 1280938000807 conserved gate region; other site 1280938000808 putative PBP binding loops; other site 1280938000809 ABC-ATPase subunit interface; other site 1280938000810 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1280938000811 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1280938000812 Uncharacterized small protein [Function unknown]; Region: COG5583 1280938000813 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 1280938000814 PAS fold; Region: PAS_3; pfam08447 1280938000815 putative active site [active] 1280938000816 heme pocket [chemical binding]; other site 1280938000817 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 1280938000818 PAS domain; Region: PAS_9; pfam13426 1280938000819 putative active site [active] 1280938000820 heme pocket [chemical binding]; other site 1280938000821 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938000822 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938000823 metal binding site [ion binding]; metal-binding site 1280938000824 active site 1280938000825 I-site; other site 1280938000826 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 1280938000827 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1280938000828 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 1280938000829 Di-iron ligands [ion binding]; other site 1280938000830 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 1280938000831 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1280938000832 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1280938000833 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1280938000834 Na binding site [ion binding]; other site 1280938000835 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1280938000836 agmatinase; Region: agmatinase; TIGR01230 1280938000837 oligomer interface [polypeptide binding]; other site 1280938000838 putative active site [active] 1280938000839 Mn binding site [ion binding]; other site 1280938000840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938000841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938000842 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 1280938000843 dimerization interface [polypeptide binding]; other site 1280938000844 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 1280938000845 PAS fold; Region: PAS_3; pfam08447 1280938000846 putative active site [active] 1280938000847 heme pocket [chemical binding]; other site 1280938000848 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938000849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938000850 metal binding site [ion binding]; metal-binding site 1280938000851 active site 1280938000852 I-site; other site 1280938000853 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938000854 agmatine deiminase; Provisional; Region: PRK13551 1280938000855 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1280938000856 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1280938000857 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1280938000858 putative active site; other site 1280938000859 catalytic triad [active] 1280938000860 putative dimer interface [polypeptide binding]; other site 1280938000861 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938000862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938000863 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1280938000864 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938000865 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1280938000866 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1280938000867 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938000868 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1280938000869 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1280938000870 catalytic triad [active] 1280938000871 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1280938000872 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938000873 putative aminotransferase; Validated; Region: PRK07480 1280938000874 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 1280938000875 inhibitor-cofactor binding pocket; inhibition site 1280938000876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938000877 catalytic residue [active] 1280938000878 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1280938000879 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938000880 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1280938000881 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938000882 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1280938000883 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938000884 Walker A/P-loop; other site 1280938000885 ATP binding site [chemical binding]; other site 1280938000886 Q-loop/lid; other site 1280938000887 ABC transporter signature motif; other site 1280938000888 Walker B; other site 1280938000889 D-loop; other site 1280938000890 H-loop/switch region; other site 1280938000891 TOBE domain; Region: TOBE_2; pfam08402 1280938000892 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 1280938000893 dimer interface [polypeptide binding]; other site 1280938000894 conserved gate region; other site 1280938000895 putative PBP binding loops; other site 1280938000896 ABC-ATPase subunit interface; other site 1280938000897 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1280938000898 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 1280938000899 dimer interface [polypeptide binding]; other site 1280938000900 conserved gate region; other site 1280938000901 putative PBP binding loops; other site 1280938000902 ABC-ATPase subunit interface; other site 1280938000903 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1280938000904 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 1280938000905 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 1280938000906 active site 1280938000907 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938000908 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938000909 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1280938000910 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1280938000911 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938000912 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1280938000913 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1280938000914 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1280938000915 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938000916 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 1280938000917 dimer interface [polypeptide binding]; other site 1280938000918 conserved gate region; other site 1280938000919 putative PBP binding loops; other site 1280938000920 ABC-ATPase subunit interface; other site 1280938000921 cystine transporter subunit; Provisional; Region: PRK11260 1280938000922 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 1280938000923 substrate binding pocket [chemical binding]; other site 1280938000924 membrane-bound complex binding site; other site 1280938000925 hinge residues; other site 1280938000926 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1280938000927 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1280938000928 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1280938000929 ligand binding site [chemical binding]; other site 1280938000930 NAD binding site [chemical binding]; other site 1280938000931 tetramer interface [polypeptide binding]; other site 1280938000932 catalytic site [active] 1280938000933 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1280938000934 L-serine binding site [chemical binding]; other site 1280938000935 ACT domain interface; other site 1280938000936 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1280938000937 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938000938 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1280938000939 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 1280938000940 SdiA-regulated; Region: SdiA-regulated; pfam06977 1280938000941 SdiA-regulated; Region: SdiA-regulated; cd09971 1280938000942 putative active site [active] 1280938000943 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 1280938000944 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1280938000945 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1280938000946 active site 1280938000947 Zn binding site [ion binding]; other site 1280938000948 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1280938000949 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1280938000950 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938000951 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1280938000952 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 1280938000953 dimer interface [polypeptide binding]; other site 1280938000954 conserved gate region; other site 1280938000955 putative PBP binding loops; other site 1280938000956 ABC-ATPase subunit interface; other site 1280938000957 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 1280938000958 dimer interface [polypeptide binding]; other site 1280938000959 conserved gate region; other site 1280938000960 putative PBP binding loops; other site 1280938000961 ABC-ATPase subunit interface; other site 1280938000962 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1280938000963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938000964 Walker A/P-loop; other site 1280938000965 ATP binding site [chemical binding]; other site 1280938000966 Q-loop/lid; other site 1280938000967 ABC transporter signature motif; other site 1280938000968 Walker B; other site 1280938000969 D-loop; other site 1280938000970 H-loop/switch region; other site 1280938000971 TOBE domain; Region: TOBE_2; pfam08402 1280938000972 SdiA-regulated; Region: SdiA-regulated; pfam06977 1280938000973 SdiA-regulated; Region: SdiA-regulated; cd09971 1280938000974 putative active site [active] 1280938000975 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 1280938000976 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1280938000977 metal binding site [ion binding]; metal-binding site 1280938000978 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 1280938000979 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 1280938000980 trimer interface [polypeptide binding]; other site 1280938000981 active site 1280938000982 substrate binding site [chemical binding]; other site 1280938000983 CoA binding site [chemical binding]; other site 1280938000984 Uncharacterized conserved protein [Function unknown]; Region: COG3422 1280938000985 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1280938000986 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 1280938000987 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1280938000988 active site 1280938000989 dimer interface [polypeptide binding]; other site 1280938000990 threonine dehydratase; Reviewed; Region: PRK09224 1280938000991 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 1280938000992 tetramer interface [polypeptide binding]; other site 1280938000993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938000994 catalytic residue [active] 1280938000995 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1280938000996 putative Ile/Val binding site [chemical binding]; other site 1280938000997 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1280938000998 putative Ile/Val binding site [chemical binding]; other site 1280938000999 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 1280938001000 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1280938001001 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1280938001002 putative NAD(P) binding site [chemical binding]; other site 1280938001003 active site 1280938001004 DoxX-like family; Region: DoxX_3; pfam13781 1280938001005 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1280938001006 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 1280938001007 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1280938001008 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1280938001009 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 1280938001010 putative active site [active] 1280938001011 Ap4A binding site [chemical binding]; other site 1280938001012 nudix motif; other site 1280938001013 putative metal binding site [ion binding]; other site 1280938001014 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1280938001015 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1280938001016 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1280938001017 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1280938001018 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1280938001019 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 1280938001020 PAS fold; Region: PAS_3; pfam08447 1280938001021 putative active site [active] 1280938001022 heme pocket [chemical binding]; other site 1280938001023 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938001024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938001025 metal binding site [ion binding]; metal-binding site 1280938001026 active site 1280938001027 I-site; other site 1280938001028 Uncharacterized conserved protein [Function unknown]; Region: COG3332 1280938001029 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1280938001030 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1280938001031 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1280938001032 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 1280938001033 dimerization interface [polypeptide binding]; other site 1280938001034 active site 1280938001035 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1280938001036 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1280938001037 G1 box; other site 1280938001038 GTP/Mg2+ binding site [chemical binding]; other site 1280938001039 G2 box; other site 1280938001040 Switch I region; other site 1280938001041 G3 box; other site 1280938001042 Switch II region; other site 1280938001043 G4 box; other site 1280938001044 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1280938001045 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1280938001046 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1280938001047 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1280938001048 putative active site [active] 1280938001049 catalytic site [active] 1280938001050 putative metal binding site [ion binding]; other site 1280938001051 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1280938001052 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 1280938001053 folate binding site [chemical binding]; other site 1280938001054 NADP+ binding site [chemical binding]; other site 1280938001055 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1280938001056 active site 1280938001057 metal binding site [ion binding]; metal-binding site 1280938001058 homotetramer interface [polypeptide binding]; other site 1280938001059 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1280938001060 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1280938001061 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1280938001062 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1280938001063 putative RNA binding site [nucleotide binding]; other site 1280938001064 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 1280938001065 S-adenosylmethionine binding site [chemical binding]; other site 1280938001066 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1280938001067 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1280938001068 proposed catalytic triad [active] 1280938001069 conserved cys residue [active] 1280938001070 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1280938001071 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1280938001072 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1280938001073 DNA binding site [nucleotide binding] 1280938001074 catalytic residue [active] 1280938001075 H2TH interface [polypeptide binding]; other site 1280938001076 putative catalytic residues [active] 1280938001077 turnover-facilitating residue; other site 1280938001078 intercalation triad [nucleotide binding]; other site 1280938001079 8OG recognition residue [nucleotide binding]; other site 1280938001080 putative reading head residues; other site 1280938001081 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1280938001082 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1280938001083 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1280938001084 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1280938001085 putative acyl-acceptor binding pocket; other site 1280938001086 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938001087 Sel1-like repeats; Region: SEL1; smart00671 1280938001088 Sel1-like repeats; Region: SEL1; smart00671 1280938001089 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1280938001090 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1280938001091 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1280938001092 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1280938001093 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1280938001094 active site 1280938001095 (T/H)XGH motif; other site 1280938001096 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1280938001097 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1280938001098 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1280938001099 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1280938001100 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1280938001101 NAD(P) binding site [chemical binding]; other site 1280938001102 catalytic residues [active] 1280938001103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938001104 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938001105 Bacterial transcriptional repressor; Region: TetR; pfam13972 1280938001106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938001107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938001108 Coenzyme A binding pocket [chemical binding]; other site 1280938001109 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1280938001110 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1280938001111 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 1280938001112 S-adenosylmethionine binding site [chemical binding]; other site 1280938001113 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1280938001114 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1280938001115 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1280938001116 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1280938001117 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1280938001118 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1280938001119 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1280938001120 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 1280938001121 P loop; other site 1280938001122 GTP binding site [chemical binding]; other site 1280938001123 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1280938001124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938001125 Walker A/P-loop; other site 1280938001126 ATP binding site [chemical binding]; other site 1280938001127 Q-loop/lid; other site 1280938001128 ABC transporter signature motif; other site 1280938001129 Walker B; other site 1280938001130 D-loop; other site 1280938001131 H-loop/switch region; other site 1280938001132 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1280938001133 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1280938001134 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1280938001135 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1280938001136 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938001137 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 1280938001138 DNA binding residues [nucleotide binding] 1280938001139 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1280938001140 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 1280938001141 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1280938001142 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1280938001143 thiS-thiF/thiG interaction site; other site 1280938001144 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 1280938001145 ThiS interaction site; other site 1280938001146 putative active site [active] 1280938001147 tetramer interface [polypeptide binding]; other site 1280938001148 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 1280938001149 S-adenosylmethionine binding site [chemical binding]; other site 1280938001150 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1280938001151 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1280938001152 HemN family oxidoreductase; Provisional; Region: PRK05660 1280938001153 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 1280938001154 FeS/SAM binding site; other site 1280938001155 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 1280938001156 active site 1280938001157 dimerization interface [polypeptide binding]; other site 1280938001158 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1280938001159 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938001160 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 1280938001161 S-adenosylmethionine binding site [chemical binding]; other site 1280938001162 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 1280938001163 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1280938001164 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1280938001165 G1 box; other site 1280938001166 GTP/Mg2+ binding site [chemical binding]; other site 1280938001167 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1280938001168 G2 box; other site 1280938001169 Switch I region; other site 1280938001170 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1280938001171 G3 box; other site 1280938001172 Switch II region; other site 1280938001173 GTP/Mg2+ binding site [chemical binding]; other site 1280938001174 G4 box; other site 1280938001175 G5 box; other site 1280938001176 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 1280938001177 YGGT family; Region: YGGT; pfam02325 1280938001178 YGGT family; Region: YGGT; pfam02325 1280938001179 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1280938001180 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1280938001181 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1280938001182 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1280938001183 catalytic residue [active] 1280938001184 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1280938001185 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 1280938001186 Walker A motif; other site 1280938001187 ATP binding site [chemical binding]; other site 1280938001188 Walker B motif; other site 1280938001189 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1280938001190 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 1280938001191 Walker A motif; other site 1280938001192 ATP binding site [chemical binding]; other site 1280938001193 Walker B motif; other site 1280938001194 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1280938001195 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1280938001196 TM2 domain; Region: TM2; cl00984 1280938001197 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1280938001198 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 1280938001199 dimer interface [polypeptide binding]; other site 1280938001200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938001201 catalytic residue [active] 1280938001202 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1280938001203 FOG: CBS domain [General function prediction only]; Region: COG0517 1280938001204 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1280938001205 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 1280938001206 homodimer interface [polypeptide binding]; other site 1280938001207 substrate-cofactor binding pocket; other site 1280938001208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938001209 catalytic residue [active] 1280938001210 dihydroorotase; Validated; Region: pyrC; PRK09357 1280938001211 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 1280938001212 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 1280938001213 active site 1280938001214 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1280938001215 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1280938001216 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1280938001217 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1280938001218 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938001219 active site 1280938001220 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1280938001221 hypothetical protein; Validated; Region: PRK00228 1280938001222 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1280938001223 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1280938001224 glutathione synthetase; Provisional; Region: PRK05246 1280938001225 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1280938001226 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1280938001227 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938001228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938001229 active site 1280938001230 phosphorylation site [posttranslational modification] 1280938001231 intermolecular recognition site; other site 1280938001232 dimerization interface [polypeptide binding]; other site 1280938001233 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938001234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938001235 active site 1280938001236 phosphorylation site [posttranslational modification] 1280938001237 intermolecular recognition site; other site 1280938001238 dimerization interface [polypeptide binding]; other site 1280938001239 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 1280938001240 putative CheA interaction surface; other site 1280938001241 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1280938001242 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938001243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938001244 dimer interface [polypeptide binding]; other site 1280938001245 putative CheW interface [polypeptide binding]; other site 1280938001246 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1280938001247 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1280938001248 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1280938001249 Hpt domain; Region: Hpt; pfam01627 1280938001250 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 1280938001251 putative binding surface; other site 1280938001252 active site 1280938001253 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 1280938001254 putative binding surface; other site 1280938001255 active site 1280938001256 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 1280938001257 putative binding surface; other site 1280938001258 active site 1280938001259 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 1280938001260 putative binding surface; other site 1280938001261 active site 1280938001262 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 1280938001263 putative binding surface; other site 1280938001264 active site 1280938001265 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1280938001266 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1280938001267 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 1280938001268 ATP binding site [chemical binding]; other site 1280938001269 Mg2+ binding site [ion binding]; other site 1280938001270 G-X-G motif; other site 1280938001271 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 1280938001272 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938001273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938001274 active site 1280938001275 phosphorylation site [posttranslational modification] 1280938001276 intermolecular recognition site; other site 1280938001277 dimerization interface [polypeptide binding]; other site 1280938001278 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1280938001279 CheB methylesterase; Region: CheB_methylest; pfam01339 1280938001280 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 1280938001281 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938001282 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938001283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938001284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938001285 LysE type translocator; Region: LysE; pfam01810 1280938001286 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1280938001287 RNA methyltransferase, RsmE family; Region: TIGR00046 1280938001288 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1280938001289 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 1280938001290 inhibitor-cofactor binding pocket; inhibition site 1280938001291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938001292 catalytic residue [active] 1280938001293 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1280938001294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938001295 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1280938001296 hypothetical protein; Provisional; Region: PRK03757 1280938001297 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1280938001298 MarR family; Region: MarR; pfam01047 1280938001299 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 1280938001300 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938001301 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938001302 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1280938001303 Protein export membrane protein; Region: SecD_SecF; cl14618 1280938001304 Protein export membrane protein; Region: SecD_SecF; cl14618 1280938001305 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1280938001306 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1280938001307 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 1280938001308 ATP binding site [chemical binding]; other site 1280938001309 Mg++ binding site [ion binding]; other site 1280938001310 motif III; other site 1280938001311 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 1280938001312 nucleotide binding region [chemical binding]; other site 1280938001313 ATP-binding site [chemical binding]; other site 1280938001314 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 1280938001315 FAD binding site [chemical binding]; other site 1280938001316 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1280938001317 HD domain; Region: HD_4; pfam13328 1280938001318 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1280938001319 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1280938001320 homotetramer interface [polypeptide binding]; other site 1280938001321 ligand binding site [chemical binding]; other site 1280938001322 catalytic site [active] 1280938001323 NAD binding site [chemical binding]; other site 1280938001324 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1280938001325 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1280938001326 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 1280938001327 N-terminal plug; other site 1280938001328 ligand-binding site [chemical binding]; other site 1280938001329 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1280938001330 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1280938001331 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1280938001332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938001333 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1280938001334 cytosine deaminase; Provisional; Region: PRK09230 1280938001335 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 1280938001336 active site 1280938001337 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 1280938001338 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1280938001339 Na binding site [ion binding]; other site 1280938001340 putative substrate binding site [chemical binding]; other site 1280938001341 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1280938001342 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1280938001343 homodimer interface [polypeptide binding]; other site 1280938001344 active site 1280938001345 FMN binding site [chemical binding]; other site 1280938001346 substrate binding site [chemical binding]; other site 1280938001347 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1280938001348 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1280938001349 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938001350 phenylhydantoinase; Validated; Region: PRK08323 1280938001351 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1280938001352 tetramer interface [polypeptide binding]; other site 1280938001353 active site 1280938001354 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1280938001355 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1280938001356 Na binding site [ion binding]; other site 1280938001357 putative substrate binding site [chemical binding]; other site 1280938001358 allantoate amidohydrolase; Reviewed; Region: PRK09290 1280938001359 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1280938001360 active site 1280938001361 metal binding site [ion binding]; metal-binding site 1280938001362 dimer interface [polypeptide binding]; other site 1280938001363 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1280938001364 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1280938001365 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1280938001366 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938001367 FAD binding site [chemical binding]; other site 1280938001368 substrate binding pocket [chemical binding]; other site 1280938001369 catalytic base [active] 1280938001370 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938001371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938001372 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 1280938001373 dimerization interface [polypeptide binding]; other site 1280938001374 substrate binding pocket [chemical binding]; other site 1280938001375 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 1280938001376 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1280938001377 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 1280938001378 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1280938001379 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1280938001380 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1280938001381 dimer interface [polypeptide binding]; other site 1280938001382 active site residues [active] 1280938001383 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1280938001384 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 1280938001385 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1280938001386 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938001387 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 1280938001388 substrate binding pocket [chemical binding]; other site 1280938001389 membrane-bound complex binding site; other site 1280938001390 hinge residues; other site 1280938001391 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1280938001392 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1280938001393 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1280938001394 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1280938001395 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 1280938001396 ATP binding site [chemical binding]; other site 1280938001397 Mg++ binding site [ion binding]; other site 1280938001398 motif III; other site 1280938001399 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 1280938001400 nucleotide binding region [chemical binding]; other site 1280938001401 ATP-binding site [chemical binding]; other site 1280938001402 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1280938001403 putative RNA binding site [nucleotide binding]; other site 1280938001404 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 1280938001405 DNA-binding site [nucleotide binding]; DNA binding site 1280938001406 RNA-binding motif; other site 1280938001407 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1280938001408 putative transporter; Provisional; Region: PRK10504 1280938001409 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 1280938001410 putative substrate translocation pore; other site 1280938001411 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 1280938001412 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1280938001413 Clp amino terminal domain; Region: Clp_N; pfam02861 1280938001414 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 1280938001415 Walker A motif; other site 1280938001416 ATP binding site [chemical binding]; other site 1280938001417 Walker B motif; other site 1280938001418 arginine finger; other site 1280938001419 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 1280938001420 Walker A motif; other site 1280938001421 ATP binding site [chemical binding]; other site 1280938001422 Walker B motif; other site 1280938001423 arginine finger; other site 1280938001424 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1280938001425 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1280938001426 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1280938001427 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1280938001428 putative acyl-acceptor binding pocket; other site 1280938001429 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1280938001430 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1280938001431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938001432 active site 1280938001433 phosphorylation site [posttranslational modification] 1280938001434 intermolecular recognition site; other site 1280938001435 dimerization interface [polypeptide binding]; other site 1280938001436 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 1280938001437 DNA binding site [nucleotide binding] 1280938001438 sensory histidine kinase CreC; Provisional; Region: PRK11100 1280938001439 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 1280938001440 dimer interface [polypeptide binding]; other site 1280938001441 phosphorylation site [posttranslational modification] 1280938001442 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 1280938001443 ATP binding site [chemical binding]; other site 1280938001444 G-X-G motif; other site 1280938001445 Inner membrane protein CreD; Region: CreD; cl01844 1280938001446 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938001447 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 1280938001448 putative C-terminal domain interface [polypeptide binding]; other site 1280938001449 putative GSH binding site (G-site) [chemical binding]; other site 1280938001450 putative dimer interface [polypeptide binding]; other site 1280938001451 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1280938001452 N-terminal domain interface [polypeptide binding]; other site 1280938001453 dimer interface [polypeptide binding]; other site 1280938001454 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1280938001455 Protein phosphatase 2C; Region: PP2C_2; pfam13672 1280938001456 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938001457 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1280938001458 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 1280938001459 N-terminal plug; other site 1280938001460 ligand-binding site [chemical binding]; other site 1280938001461 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938001462 FecR protein; Region: FecR; pfam04773 1280938001463 RNA polymerase sigma factor; Reviewed; Region: PRK12523 1280938001464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938001465 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 1280938001466 DNA binding residues [nucleotide binding] 1280938001467 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938001468 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 1280938001469 C-terminal domain interface [polypeptide binding]; other site 1280938001470 GSH binding site (G-site) [chemical binding]; other site 1280938001471 dimer interface [polypeptide binding]; other site 1280938001472 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1280938001473 N-terminal domain interface [polypeptide binding]; other site 1280938001474 dimer interface [polypeptide binding]; other site 1280938001475 substrate binding pocket (H-site) [chemical binding]; other site 1280938001476 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 1280938001477 CoenzymeA binding site [chemical binding]; other site 1280938001478 subunit interaction site [polypeptide binding]; other site 1280938001479 PHB binding site; other site 1280938001480 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938001481 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938001482 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1280938001483 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1280938001484 Na binding site [ion binding]; other site 1280938001485 putative substrate binding site [chemical binding]; other site 1280938001486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938001487 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 1280938001488 putative substrate binding pocket [chemical binding]; other site 1280938001489 dimerization interface [polypeptide binding]; other site 1280938001490 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938001491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938001492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938001493 dimerization interface [polypeptide binding]; other site 1280938001494 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938001495 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1280938001496 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 1280938001497 active site 1280938001498 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938001499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938001500 Coenzyme A binding pocket [chemical binding]; other site 1280938001501 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1280938001502 ACT domain; Region: ACT_6; pfam13740 1280938001503 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1280938001504 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1280938001505 EamA-like transporter family; Region: EamA; pfam00892 1280938001506 serine/threonine protein kinase; Provisional; Region: PRK11768 1280938001507 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1280938001508 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1280938001509 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1280938001510 TOBE domain; Region: TOBE; cl01440 1280938001511 TOBE domain; Region: TOBE; cl01440 1280938001512 lipoprotein; Provisional; Region: PRK10759 1280938001513 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1280938001514 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938001515 active site 1280938001516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938001517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938001518 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 1280938001519 putative substrate binding pocket [chemical binding]; other site 1280938001520 dimerization interface [polypeptide binding]; other site 1280938001521 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 1280938001522 putative active site [active] 1280938001523 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 1280938001524 carboxyltransferase (CT) interaction site; other site 1280938001525 biotinylation site [posttranslational modification]; other site 1280938001526 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 1280938001527 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938001528 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938001529 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1280938001530 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1280938001531 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1280938001532 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1280938001533 Fimbrial protein; Region: Fimbrial; pfam00419 1280938001534 biotin synthase; Provisional; Region: PRK15108 1280938001535 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 1280938001536 FeS/SAM binding site; other site 1280938001537 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1280938001538 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1280938001539 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 1280938001540 substrate-cofactor binding pocket; other site 1280938001541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938001542 catalytic residue [active] 1280938001543 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938001544 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1280938001545 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 1280938001546 S-adenosylmethionine binding site [chemical binding]; other site 1280938001547 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1280938001548 AAA domain; Region: AAA_26; pfam13500 1280938001549 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1280938001550 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1280938001551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938001552 active site 1280938001553 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1280938001554 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1280938001555 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1280938001556 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938001557 active site 1280938001558 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1280938001559 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1280938001560 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1280938001561 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938001562 active site 1280938001563 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1280938001564 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938001565 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938001566 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1280938001567 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1280938001568 structural tetrad; other site 1280938001569 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1280938001570 active site 1280938001571 SAM binding site [chemical binding]; other site 1280938001572 homodimer interface [polypeptide binding]; other site 1280938001573 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 1280938001574 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 1280938001575 FeS/SAM binding site; other site 1280938001576 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938001577 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938001578 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938001579 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938001580 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1280938001581 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938001582 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938001583 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 1280938001584 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938001585 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938001586 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1280938001587 MoxR-like ATPases [General function prediction only]; Region: COG0714 1280938001588 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 1280938001589 Walker A motif; other site 1280938001590 ATP binding site [chemical binding]; other site 1280938001591 Walker B motif; other site 1280938001592 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1280938001593 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1280938001594 Subunit I/III interface [polypeptide binding]; other site 1280938001595 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938001596 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1280938001597 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1280938001598 Low-spin heme binding site [chemical binding]; other site 1280938001599 D-pathway; other site 1280938001600 Putative water exit pathway; other site 1280938001601 Binuclear center (active site) [active] 1280938001602 K-pathway; other site 1280938001603 Putative proton exit pathway; other site 1280938001604 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1280938001605 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1280938001606 metal ion-dependent adhesion site (MIDAS); other site 1280938001607 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1280938001608 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 1280938001609 ligand binding site [chemical binding]; other site 1280938001610 flexible hinge region; other site 1280938001611 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1280938001612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938001613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938001614 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 1280938001615 dimerization interface [polypeptide binding]; other site 1280938001616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1280938001617 MOSC domain; Region: MOSC; pfam03473 1280938001618 3-alpha domain; Region: 3-alpha; pfam03475 1280938001619 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1280938001620 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 1280938001621 inhibitor-cofactor binding pocket; inhibition site 1280938001622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938001623 catalytic residue [active] 1280938001624 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1280938001625 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1280938001626 catalytic triad [active] 1280938001627 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1280938001628 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 1280938001629 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1280938001630 putative active site [active] 1280938001631 heme pocket [chemical binding]; other site 1280938001632 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 1280938001633 putative active site [active] 1280938001634 heme pocket [chemical binding]; other site 1280938001635 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938001636 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 1280938001637 DNA binding residues [nucleotide binding] 1280938001638 dimerization interface [polypeptide binding]; other site 1280938001639 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938001640 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938001641 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 1280938001642 non-specific DNA binding site [nucleotide binding]; other site 1280938001643 salt bridge; other site 1280938001644 sequence-specific DNA binding site [nucleotide binding]; other site 1280938001645 Cupin domain; Region: Cupin_2; pfam07883 1280938001646 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1280938001647 Repair protein; Region: Repair_PSII; pfam04536 1280938001648 LemA family; Region: LemA; pfam04011 1280938001649 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1280938001650 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1280938001651 EamA-like transporter family; Region: EamA; pfam00892 1280938001652 Predicted membrane protein [Function unknown]; Region: COG3686 1280938001653 Cytochrome c556 [Energy production and conversion]; Region: COG3909 1280938001654 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1280938001655 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1280938001656 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1280938001657 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1280938001658 active site 1280938001659 metal binding site [ion binding]; metal-binding site 1280938001660 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1280938001661 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1280938001662 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1280938001663 FAD binding pocket [chemical binding]; other site 1280938001664 FAD binding motif [chemical binding]; other site 1280938001665 phosphate binding motif [ion binding]; other site 1280938001666 beta-alpha-beta structure motif; other site 1280938001667 NAD binding pocket [chemical binding]; other site 1280938001668 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1280938001669 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1280938001670 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1280938001671 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1280938001672 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 1280938001673 putative DNA binding site [nucleotide binding]; other site 1280938001674 dimerization interface [polypeptide binding]; other site 1280938001675 putative Zn2+ binding site [ion binding]; other site 1280938001676 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1280938001677 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 1280938001678 S-adenosylmethionine binding site [chemical binding]; other site 1280938001679 transketolase; Reviewed; Region: PRK12753 1280938001680 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 1280938001681 TPP-binding site [chemical binding]; other site 1280938001682 dimer interface [polypeptide binding]; other site 1280938001683 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 1280938001684 PYR/PP interface [polypeptide binding]; other site 1280938001685 dimer interface [polypeptide binding]; other site 1280938001686 TPP binding site [chemical binding]; other site 1280938001687 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1280938001688 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1280938001689 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1280938001690 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1280938001691 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1280938001692 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1280938001693 Phosphoglycerate kinase; Region: PGK; pfam00162 1280938001694 substrate binding site [chemical binding]; other site 1280938001695 hinge regions; other site 1280938001696 ADP binding site [chemical binding]; other site 1280938001697 catalytic site [active] 1280938001698 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1280938001699 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 1280938001700 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1280938001701 intersubunit interface [polypeptide binding]; other site 1280938001702 active site 1280938001703 zinc binding site [ion binding]; other site 1280938001704 Na+ binding site [ion binding]; other site 1280938001705 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1280938001706 SnoaL-like domain; Region: SnoaL_3; pfam13474 1280938001707 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938001708 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 1280938001709 S-adenosylmethionine binding site [chemical binding]; other site 1280938001710 Predicted flavoproteins [General function prediction only]; Region: COG2081 1280938001711 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1280938001712 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1280938001713 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1280938001714 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1280938001715 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 1280938001716 motif II; other site 1280938001717 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1280938001718 Cupin; Region: Cupin_6; pfam12852 1280938001719 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938001720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938001721 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1280938001722 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1280938001723 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 1280938001724 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 1280938001725 Peptidase M60-like family; Region: M60-like; pfam13402 1280938001726 Nuclease-related domain; Region: NERD; pfam08378 1280938001727 Fic family protein [Function unknown]; Region: COG3177 1280938001728 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1280938001729 Fic/DOC family; Region: Fic; pfam02661 1280938001730 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938001731 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 1280938001732 substrate binding pocket [chemical binding]; other site 1280938001733 membrane-bound complex binding site; other site 1280938001734 hinge residues; other site 1280938001735 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1280938001736 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 1280938001737 putative active site [active] 1280938001738 heme pocket [chemical binding]; other site 1280938001739 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 1280938001740 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1280938001741 putative active site [active] 1280938001742 heme pocket [chemical binding]; other site 1280938001743 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 1280938001744 putative active site [active] 1280938001745 heme pocket [chemical binding]; other site 1280938001746 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 1280938001747 putative active site [active] 1280938001748 heme pocket [chemical binding]; other site 1280938001749 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938001750 metal binding site [ion binding]; metal-binding site 1280938001751 active site 1280938001752 I-site; other site 1280938001753 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 1280938001754 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1280938001755 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1280938001756 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1280938001757 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1280938001758 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938001759 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1280938001760 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 1280938001761 DNA binding residues [nucleotide binding] 1280938001762 DNA primase, catalytic core; Region: dnaG; TIGR01391 1280938001763 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1280938001764 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1280938001765 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 1280938001766 active site 1280938001767 metal binding site [ion binding]; metal-binding site 1280938001768 interdomain interaction site; other site 1280938001769 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1280938001770 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1280938001771 Yqey-like protein; Region: YqeY; pfam09424 1280938001772 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1280938001773 UGMP family protein; Validated; Region: PRK09604 1280938001774 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1280938001775 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1280938001776 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 1280938001777 homooctamer interface [polypeptide binding]; other site 1280938001778 active site 1280938001779 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 1280938001780 catalytic center binding site [active] 1280938001781 ATP binding site [chemical binding]; other site 1280938001782 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1280938001783 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1280938001784 active site 1280938001785 NTP binding site [chemical binding]; other site 1280938001786 metal binding triad [ion binding]; metal-binding site 1280938001787 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1280938001788 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938001789 Zn2+ binding site [ion binding]; other site 1280938001790 Mg2+ binding site [ion binding]; other site 1280938001791 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1280938001792 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1280938001793 SpoVR family protein; Provisional; Region: PRK11767 1280938001794 hypothetical protein; Provisional; Region: PRK05325 1280938001795 PrkA family serine protein kinase; Provisional; Region: PRK15455 1280938001796 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1280938001797 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 1280938001798 active site residue [active] 1280938001799 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1280938001800 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1280938001801 active site 1280938001802 metal binding site [ion binding]; metal-binding site 1280938001803 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1280938001804 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1280938001805 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1280938001806 S-adenosylmethionine binding site [chemical binding]; other site 1280938001807 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1280938001808 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1280938001809 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1280938001810 SurA N-terminal domain; Region: SurA_N; pfam09312 1280938001811 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1280938001812 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1280938001813 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1280938001814 OstA-like protein; Region: OstA; cl00844 1280938001815 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1280938001816 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1280938001817 Phosphotransferase enzyme family; Region: APH; pfam01636 1280938001818 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 1280938001819 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1280938001820 Substrate binding site; other site 1280938001821 metal-binding site 1280938001822 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1280938001823 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1280938001824 putative metal binding site [ion binding]; other site 1280938001825 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 1280938001826 HSP70 interaction site [polypeptide binding]; other site 1280938001827 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1280938001828 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 1280938001829 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938001830 substrate binding pocket [chemical binding]; other site 1280938001831 membrane-bound complex binding site; other site 1280938001832 hinge residues; other site 1280938001833 PAS domain S-box; Region: sensory_box; TIGR00229 1280938001834 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 1280938001835 putative active site [active] 1280938001836 heme pocket [chemical binding]; other site 1280938001837 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 1280938001838 PAS fold; Region: PAS_3; pfam08447 1280938001839 putative active site [active] 1280938001840 heme pocket [chemical binding]; other site 1280938001841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1280938001842 Histidine kinase; Region: HisKA_3; pfam07730 1280938001843 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 1280938001844 ATP binding site [chemical binding]; other site 1280938001845 Mg2+ binding site [ion binding]; other site 1280938001846 G-X-G motif; other site 1280938001847 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938001848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938001849 active site 1280938001850 phosphorylation site [posttranslational modification] 1280938001851 intermolecular recognition site; other site 1280938001852 dimerization interface [polypeptide binding]; other site 1280938001853 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 1280938001854 DNA binding residues [nucleotide binding] 1280938001855 dimerization interface [polypeptide binding]; other site 1280938001856 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1280938001857 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938001858 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1280938001859 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1280938001860 Walker A/P-loop; other site 1280938001861 ATP binding site [chemical binding]; other site 1280938001862 Q-loop/lid; other site 1280938001863 ABC transporter signature motif; other site 1280938001864 Walker B; other site 1280938001865 D-loop; other site 1280938001866 H-loop/switch region; other site 1280938001867 Poxvirus L5 protein family; Region: Pox_L5; cl17406 1280938001868 TOBE domain; Region: TOBE_2; pfam08402 1280938001869 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1280938001870 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938001871 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 1280938001872 dimer interface [polypeptide binding]; other site 1280938001873 conserved gate region; other site 1280938001874 putative PBP binding loops; other site 1280938001875 ABC-ATPase subunit interface; other site 1280938001876 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1280938001877 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 1280938001878 dimer interface [polypeptide binding]; other site 1280938001879 conserved gate region; other site 1280938001880 putative PBP binding loops; other site 1280938001881 ABC-ATPase subunit interface; other site 1280938001882 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 1280938001883 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1280938001884 substrate binding site [chemical binding]; other site 1280938001885 hexamer interface [polypeptide binding]; other site 1280938001886 metal binding site [ion binding]; metal-binding site 1280938001887 phosphoglycolate phosphatase; Provisional; Region: PRK13223 1280938001888 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 1280938001889 motif II; other site 1280938001890 anthranilate synthase component I; Provisional; Region: PRK13565 1280938001891 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1280938001892 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1280938001893 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 1280938001894 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 1280938001895 non-specific DNA binding site [nucleotide binding]; other site 1280938001896 Predicted transcriptional regulator [Transcription]; Region: COG2932 1280938001897 salt bridge; other site 1280938001898 sequence-specific DNA binding site [nucleotide binding]; other site 1280938001899 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 1280938001900 Catalytic site [active] 1280938001901 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1280938001902 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1280938001903 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1280938001904 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 1280938001905 Phage-related baseplate assembly protein [General function prediction only]; Region: COG3948 1280938001906 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 1280938001907 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 1280938001908 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1280938001909 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1280938001910 phage contractile tail tube protein, P2 family; Region: tail_tube; TIGR01611 1280938001911 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1280938001912 Mu-like prophage protein [General function prediction only]; Region: COG3941 1280938001913 Phage protein U [General function prediction only]; Region: COG3499 1280938001914 P2-like prophage tail protein X [General function prediction only]; Region: COG5004 1280938001915 Phage protein D [General function prediction only]; Region: COG3500 1280938001916 Predicted chitinase [General function prediction only]; Region: COG3179 1280938001917 catalytic residue [active] 1280938001918 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1280938001919 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1280938001920 glutamine binding [chemical binding]; other site 1280938001921 catalytic triad [active] 1280938001922 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1280938001923 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1280938001924 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1280938001925 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 1280938001926 active site 1280938001927 ribulose/triose binding site [chemical binding]; other site 1280938001928 phosphate binding site [ion binding]; other site 1280938001929 substrate (anthranilate) binding pocket [chemical binding]; other site 1280938001930 product (indole) binding pocket [chemical binding]; other site 1280938001931 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1280938001932 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 1280938001933 ligand binding site [chemical binding]; other site 1280938001934 flexible hinge region; other site 1280938001935 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 1280938001936 putative switch regulator; other site 1280938001937 non-specific DNA interactions [nucleotide binding]; other site 1280938001938 DNA binding site [nucleotide binding] 1280938001939 sequence specific DNA binding site [nucleotide binding]; other site 1280938001940 putative cAMP binding site [chemical binding]; other site 1280938001941 OsmC-like protein; Region: OsmC; cl00767 1280938001942 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1280938001943 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1280938001944 diiron binding motif [ion binding]; other site 1280938001945 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1280938001946 nucleotide binding site/active site [active] 1280938001947 HIT family signature motif; other site 1280938001948 catalytic residue [active] 1280938001949 Ycf46; Provisional; Region: ycf46; CHL00195 1280938001950 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 1280938001951 Walker A motif; other site 1280938001952 ATP binding site [chemical binding]; other site 1280938001953 Walker B motif; other site 1280938001954 arginine finger; other site 1280938001955 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1280938001956 classical (c) SDRs; Region: SDR_c; cd05233 1280938001957 NAD(P) binding site [chemical binding]; other site 1280938001958 active site 1280938001959 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1280938001960 Predicted membrane protein [Function unknown]; Region: COG3152 1280938001961 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1280938001962 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1280938001963 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1280938001964 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 1280938001965 FMN binding site [chemical binding]; other site 1280938001966 substrate binding site [chemical binding]; other site 1280938001967 putative catalytic residue [active] 1280938001968 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1280938001969 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1280938001970 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1280938001971 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1280938001972 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1280938001973 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1280938001974 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 1280938001975 putative peptidase; Provisional; Region: PRK11649 1280938001976 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1280938001977 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938001978 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1280938001979 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1280938001980 active site 1280938001981 HIGH motif; other site 1280938001982 dimer interface [polypeptide binding]; other site 1280938001983 KMSKS motif; other site 1280938001984 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1280938001985 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1280938001986 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1280938001987 pantothenate kinase; Reviewed; Region: PRK13322 1280938001988 Sporulation related domain; Region: SPOR; pfam05036 1280938001989 Sporulation related domain; Region: SPOR; pfam05036 1280938001990 elongation factor Tu; Reviewed; Region: PRK00049 1280938001991 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1280938001992 G1 box; other site 1280938001993 GEF interaction site [polypeptide binding]; other site 1280938001994 GTP/Mg2+ binding site [chemical binding]; other site 1280938001995 Switch I region; other site 1280938001996 G2 box; other site 1280938001997 G3 box; other site 1280938001998 Switch II region; other site 1280938001999 G4 box; other site 1280938002000 G5 box; other site 1280938002001 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 1280938002002 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 1280938002003 Antibiotic Binding Site [chemical binding]; other site 1280938002004 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1280938002005 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1280938002006 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1280938002007 putative homodimer interface [polypeptide binding]; other site 1280938002008 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1280938002009 heterodimer interface [polypeptide binding]; other site 1280938002010 homodimer interface [polypeptide binding]; other site 1280938002011 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1280938002012 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 1280938002013 23S rRNA interface [nucleotide binding]; other site 1280938002014 L7/L12 interface [polypeptide binding]; other site 1280938002015 putative thiostrepton binding site; other site 1280938002016 L25 interface [polypeptide binding]; other site 1280938002017 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 1280938002018 mRNA/rRNA interface [nucleotide binding]; other site 1280938002019 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 1280938002020 23S rRNA interface [nucleotide binding]; other site 1280938002021 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1280938002022 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 1280938002023 core dimer interface [polypeptide binding]; other site 1280938002024 peripheral dimer interface [polypeptide binding]; other site 1280938002025 L10 interface [polypeptide binding]; other site 1280938002026 L11 interface [polypeptide binding]; other site 1280938002027 putative EF-Tu interaction site [polypeptide binding]; other site 1280938002028 putative EF-G interaction site [polypeptide binding]; other site 1280938002029 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1280938002030 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 1280938002031 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1280938002032 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 1280938002033 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1280938002034 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 1280938002035 RPB3 interaction site [polypeptide binding]; other site 1280938002036 RPB1 interaction site [polypeptide binding]; other site 1280938002037 RPB11 interaction site [polypeptide binding]; other site 1280938002038 RPB10 interaction site [polypeptide binding]; other site 1280938002039 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1280938002040 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1280938002041 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1280938002042 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1280938002043 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1280938002044 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1280938002045 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1280938002046 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1280938002047 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1280938002048 DNA binding site [nucleotide binding] 1280938002049 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1280938002050 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 1280938002051 S17 interaction site [polypeptide binding]; other site 1280938002052 S8 interaction site; other site 1280938002053 16S rRNA interaction site [nucleotide binding]; other site 1280938002054 streptomycin interaction site [chemical binding]; other site 1280938002055 23S rRNA interaction site [nucleotide binding]; other site 1280938002056 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1280938002057 30S ribosomal protein S7; Validated; Region: PRK05302 1280938002058 elongation factor G; Reviewed; Region: PRK00007 1280938002059 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1280938002060 G1 box; other site 1280938002061 putative GEF interaction site [polypeptide binding]; other site 1280938002062 GTP/Mg2+ binding site [chemical binding]; other site 1280938002063 Switch I region; other site 1280938002064 G2 box; other site 1280938002065 G3 box; other site 1280938002066 Switch II region; other site 1280938002067 G4 box; other site 1280938002068 G5 box; other site 1280938002069 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 1280938002070 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 1280938002071 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 1280938002072 elongation factor Tu; Reviewed; Region: PRK00049 1280938002073 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1280938002074 G1 box; other site 1280938002075 GEF interaction site [polypeptide binding]; other site 1280938002076 GTP/Mg2+ binding site [chemical binding]; other site 1280938002077 Switch I region; other site 1280938002078 G2 box; other site 1280938002079 G3 box; other site 1280938002080 Switch II region; other site 1280938002081 G4 box; other site 1280938002082 G5 box; other site 1280938002083 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 1280938002084 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 1280938002085 Antibiotic Binding Site [chemical binding]; other site 1280938002086 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1280938002087 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1280938002088 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1280938002089 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1280938002090 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1280938002091 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1280938002092 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1280938002093 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1280938002094 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 1280938002095 protein-rRNA interface [nucleotide binding]; other site 1280938002096 putative translocon binding site; other site 1280938002097 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1280938002098 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 1280938002099 G-X-X-G motif; other site 1280938002100 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1280938002101 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 1280938002102 23S rRNA interface [nucleotide binding]; other site 1280938002103 5S rRNA interface [nucleotide binding]; other site 1280938002104 putative antibiotic binding site [chemical binding]; other site 1280938002105 L25 interface [polypeptide binding]; other site 1280938002106 L27 interface [polypeptide binding]; other site 1280938002107 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 1280938002108 23S rRNA interface [nucleotide binding]; other site 1280938002109 putative translocon interaction site; other site 1280938002110 signal recognition particle (SRP54) interaction site; other site 1280938002111 L23 interface [polypeptide binding]; other site 1280938002112 trigger factor interaction site; other site 1280938002113 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1280938002114 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1280938002115 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1280938002116 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1280938002117 RNA binding site [nucleotide binding]; other site 1280938002118 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1280938002119 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1280938002120 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1280938002121 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1280938002122 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1280938002123 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1280938002124 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1280938002125 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1280938002126 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 1280938002127 5S rRNA interface [nucleotide binding]; other site 1280938002128 23S rRNA interface [nucleotide binding]; other site 1280938002129 L5 interface [polypeptide binding]; other site 1280938002130 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1280938002131 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1280938002132 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1280938002133 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 1280938002134 23S rRNA binding site [nucleotide binding]; other site 1280938002135 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1280938002136 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1280938002137 SecY translocase; Region: SecY; pfam00344 1280938002138 Ribosomal protein L36 [Translation, ribosomal structure and biogenesis]; Region: RpmJ; COG0257 1280938002139 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1280938002140 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1280938002141 30S ribosomal protein S11; Validated; Region: PRK05309 1280938002142 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1280938002143 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1280938002144 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 1280938002145 RNA binding surface [nucleotide binding]; other site 1280938002146 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1280938002147 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1280938002148 alphaNTD homodimer interface [polypeptide binding]; other site 1280938002149 alphaNTD - beta interaction site [polypeptide binding]; other site 1280938002150 alphaNTD - beta' interaction site [polypeptide binding]; other site 1280938002151 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1280938002152 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1280938002153 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1280938002154 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1280938002155 tetramer interface [polypeptide binding]; other site 1280938002156 heme binding pocket [chemical binding]; other site 1280938002157 NADPH binding site [chemical binding]; other site 1280938002158 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1280938002159 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1280938002160 heme binding site [chemical binding]; other site 1280938002161 ferroxidase pore; other site 1280938002162 ferroxidase diiron center [ion binding]; other site 1280938002163 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1280938002164 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1280938002165 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1280938002166 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1280938002167 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 1280938002168 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938002169 putative substrate translocation pore; other site 1280938002170 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1280938002171 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 1280938002172 dimer interface [polypeptide binding]; other site 1280938002173 ssDNA binding site [nucleotide binding]; other site 1280938002174 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1280938002175 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 1280938002176 isochorismate synthases; Region: isochor_syn; TIGR00543 1280938002177 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 1280938002178 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1280938002179 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1280938002180 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1280938002181 acyl-activating enzyme (AAE) consensus motif; other site 1280938002182 active site 1280938002183 AMP binding site [chemical binding]; other site 1280938002184 substrate binding site [chemical binding]; other site 1280938002185 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938002186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938002187 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1280938002188 Condensation domain; Region: Condensation; pfam00668 1280938002189 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938002190 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1280938002191 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1280938002192 acyl-activating enzyme (AAE) consensus motif; other site 1280938002193 AMP binding site [chemical binding]; other site 1280938002194 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938002195 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938002196 Condensation domain; Region: Condensation; pfam00668 1280938002197 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938002198 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1280938002199 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1280938002200 acyl-activating enzyme (AAE) consensus motif; other site 1280938002201 AMP binding site [chemical binding]; other site 1280938002202 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1280938002203 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938002204 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938002205 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 1280938002206 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1280938002207 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1280938002208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938002209 Walker A/P-loop; other site 1280938002210 ATP binding site [chemical binding]; other site 1280938002211 Q-loop/lid; other site 1280938002212 ABC transporter signature motif; other site 1280938002213 Walker B; other site 1280938002214 D-loop; other site 1280938002215 H-loop/switch region; other site 1280938002216 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1280938002217 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1280938002218 Walker A/P-loop; other site 1280938002219 ATP binding site [chemical binding]; other site 1280938002220 Q-loop/lid; other site 1280938002221 ABC transporter signature motif; other site 1280938002222 Walker B; other site 1280938002223 D-loop; other site 1280938002224 H-loop/switch region; other site 1280938002225 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1280938002226 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 1280938002227 N-terminal plug; other site 1280938002228 ligand-binding site [chemical binding]; other site 1280938002229 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1280938002230 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1280938002231 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 1280938002232 hypothetical protein; Provisional; Region: PRK07538 1280938002233 hypothetical protein; Provisional; Region: PRK07236 1280938002234 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 1280938002235 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1280938002236 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1280938002237 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 1280938002238 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1280938002239 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1280938002240 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1280938002241 glutamine binding [chemical binding]; other site 1280938002242 catalytic triad [active] 1280938002243 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1280938002244 hydrophobic substrate binding pocket; other site 1280938002245 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938002246 active site 1280938002247 conserved cis-peptide bond; other site 1280938002248 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 1280938002249 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1280938002250 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1280938002251 O-methyltransferase; Region: Methyltransf_2; pfam00891 1280938002252 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1280938002253 multidrug efflux protein; Reviewed; Region: PRK09579 1280938002254 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938002255 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938002256 Predicted membrane protein [Function unknown]; Region: COG2259 1280938002257 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 1280938002258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938002259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938002260 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 1280938002261 dimerization interface [polypeptide binding]; other site 1280938002262 Nitronate monooxygenase; Region: NMO; pfam03060 1280938002263 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 1280938002264 FMN binding site [chemical binding]; other site 1280938002265 substrate binding site [chemical binding]; other site 1280938002266 putative catalytic residue [active] 1280938002267 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1280938002268 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1280938002269 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938002270 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1280938002271 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1280938002272 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1280938002273 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938002274 active site 1280938002275 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1280938002276 acyl-CoA synthetase; Validated; Region: PRK08162 1280938002277 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1280938002278 acyl-activating enzyme (AAE) consensus motif; other site 1280938002279 putative active site [active] 1280938002280 AMP binding site [chemical binding]; other site 1280938002281 putative CoA binding site [chemical binding]; other site 1280938002282 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1280938002283 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 1280938002284 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1280938002285 putative active site [active] 1280938002286 heme pocket [chemical binding]; other site 1280938002287 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 1280938002288 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938002289 putative active site [active] 1280938002290 heme pocket [chemical binding]; other site 1280938002291 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 1280938002292 dimer interface [polypeptide binding]; other site 1280938002293 phosphorylation site [posttranslational modification] 1280938002294 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 1280938002295 ATP binding site [chemical binding]; other site 1280938002296 Mg2+ binding site [ion binding]; other site 1280938002297 G-X-G motif; other site 1280938002298 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1280938002299 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938002300 active site 1280938002301 phosphorylation site [posttranslational modification] 1280938002302 intermolecular recognition site; other site 1280938002303 dimerization interface [polypeptide binding]; other site 1280938002304 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 1280938002305 DNA binding residues [nucleotide binding] 1280938002306 dimerization interface [polypeptide binding]; other site 1280938002307 putative monooxygenase; Reviewed; Region: PRK07045 1280938002308 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1280938002309 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1280938002310 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1280938002311 NAD(P) binding site [chemical binding]; other site 1280938002312 catalytic residues [active] 1280938002313 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1280938002314 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1280938002315 inhibitor site; inhibition site 1280938002316 active site 1280938002317 dimer interface [polypeptide binding]; other site 1280938002318 catalytic residue [active] 1280938002319 benzoate transport; Region: 2A0115; TIGR00895 1280938002320 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 1280938002321 putative substrate translocation pore; other site 1280938002322 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938002323 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938002324 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1280938002325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938002326 DNA-binding site [nucleotide binding]; DNA binding site 1280938002327 FCD domain; Region: FCD; pfam07729 1280938002328 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1280938002329 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1280938002330 conserved cys residue [active] 1280938002331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938002332 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938002333 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 1280938002334 active site 1280938002335 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1280938002336 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1280938002337 B3/4 domain; Region: B3_4; pfam03483 1280938002338 acetolactate synthase; Reviewed; Region: PRK08322 1280938002339 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1280938002340 PYR/PP interface [polypeptide binding]; other site 1280938002341 dimer interface [polypeptide binding]; other site 1280938002342 TPP binding site [chemical binding]; other site 1280938002343 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938002344 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1280938002345 TPP-binding site [chemical binding]; other site 1280938002346 dimer interface [polypeptide binding]; other site 1280938002347 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938002348 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1280938002349 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 1280938002350 S-adenosylmethionine binding site [chemical binding]; other site 1280938002351 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 1280938002352 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1280938002353 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938002354 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938002355 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1280938002356 Outer membrane efflux protein; Region: OEP; pfam02321 1280938002357 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1280938002358 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1280938002359 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1280938002360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938002361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938002362 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 1280938002363 putative effector binding pocket; other site 1280938002364 putative dimerization interface [polypeptide binding]; other site 1280938002365 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 1280938002366 homotrimer interaction site [polypeptide binding]; other site 1280938002367 putative active site [active] 1280938002368 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 1280938002369 putative catalytic site [active] 1280938002370 putative phosphate binding site [ion binding]; other site 1280938002371 active site 1280938002372 metal binding site A [ion binding]; metal-binding site 1280938002373 DNA binding site [nucleotide binding] 1280938002374 putative AP binding site [nucleotide binding]; other site 1280938002375 putative metal binding site B [ion binding]; other site 1280938002376 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1280938002377 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1280938002378 proposed catalytic triad [active] 1280938002379 conserved cys residue [active] 1280938002380 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1280938002381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1280938002382 Predicted transcriptional regulator [Transcription]; Region: COG1959 1280938002383 Transcriptional regulator; Region: Rrf2; pfam02082 1280938002384 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1280938002385 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 1280938002386 N-terminal plug; other site 1280938002387 ligand-binding site [chemical binding]; other site 1280938002388 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 1280938002389 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938002390 active site 1280938002391 catalytic tetrad [active] 1280938002392 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938002393 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938002394 Coenzyme A binding pocket [chemical binding]; other site 1280938002395 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 1280938002396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938002397 DNA-binding site [nucleotide binding]; DNA binding site 1280938002398 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 1280938002399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938002400 homodimer interface [polypeptide binding]; other site 1280938002401 catalytic residue [active] 1280938002402 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1280938002403 putative active site pocket [active] 1280938002404 dimerization interface [polypeptide binding]; other site 1280938002405 putative catalytic residue [active] 1280938002406 amidase; Validated; Region: PRK06565 1280938002407 Amidase; Region: Amidase; cl11426 1280938002408 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1280938002409 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 1280938002410 ABC-ATPase subunit interface; other site 1280938002411 dimer interface [polypeptide binding]; other site 1280938002412 FecCD transport family; Region: FecCD; pfam01032 1280938002413 ABC-ATPase subunit interface; other site 1280938002414 dimer interface [polypeptide binding]; other site 1280938002415 putative PBP binding regions; other site 1280938002416 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 1280938002417 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1280938002418 siderophore binding site; other site 1280938002419 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1280938002420 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1280938002421 Walker A/P-loop; other site 1280938002422 ATP binding site [chemical binding]; other site 1280938002423 Q-loop/lid; other site 1280938002424 ABC transporter signature motif; other site 1280938002425 Walker B; other site 1280938002426 D-loop; other site 1280938002427 H-loop/switch region; other site 1280938002428 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1280938002429 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1280938002430 Bacterial transcriptional regulator; Region: IclR; pfam01614 1280938002431 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1280938002432 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 1280938002433 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1280938002434 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 1280938002435 active site 1280938002436 non-prolyl cis peptide bond; other site 1280938002437 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1280938002438 Bacterial SH3 domain; Region: SH3_3; pfam08239 1280938002439 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1280938002440 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1280938002441 putative NAD(P) binding site [chemical binding]; other site 1280938002442 catalytic Zn binding site [ion binding]; other site 1280938002443 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1280938002444 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 1280938002445 E3 interaction surface; other site 1280938002446 lipoyl attachment site [posttranslational modification]; other site 1280938002447 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 1280938002448 nucleophilic elbow; other site 1280938002449 catalytic triad; other site 1280938002450 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1280938002451 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 1280938002452 alpha subunit interface [polypeptide binding]; other site 1280938002453 TPP binding site [chemical binding]; other site 1280938002454 heterodimer interface [polypeptide binding]; other site 1280938002455 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1280938002456 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1280938002457 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 1280938002458 tetramer interface [polypeptide binding]; other site 1280938002459 TPP-binding site [chemical binding]; other site 1280938002460 heterodimer interface [polypeptide binding]; other site 1280938002461 phosphorylation loop region [posttranslational modification] 1280938002462 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1280938002463 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1280938002464 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938002465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938002466 NAD(P) binding site [chemical binding]; other site 1280938002467 active site 1280938002468 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1280938002469 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 1280938002470 Walker A motif; other site 1280938002471 ATP binding site [chemical binding]; other site 1280938002472 Walker B motif; other site 1280938002473 arginine finger; other site 1280938002474 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938002475 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938002476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938002477 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 1280938002478 putative effector binding pocket; other site 1280938002479 dimerization interface [polypeptide binding]; other site 1280938002480 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1280938002481 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1280938002482 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_C39C; cd02419 1280938002483 putative active site [active] 1280938002484 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938002485 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1280938002486 Walker A/P-loop; other site 1280938002487 ATP binding site [chemical binding]; other site 1280938002488 Q-loop/lid; other site 1280938002489 ABC transporter signature motif; other site 1280938002490 Walker B; other site 1280938002491 D-loop; other site 1280938002492 H-loop/switch region; other site 1280938002493 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1280938002494 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938002495 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938002496 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1280938002497 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938002498 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 1280938002499 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1280938002500 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1280938002501 active site 1280938002502 HIGH motif; other site 1280938002503 dimer interface [polypeptide binding]; other site 1280938002504 KMSKS motif; other site 1280938002505 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938002506 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 1280938002507 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1280938002508 putative substrate translocation pore; other site 1280938002509 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1280938002510 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1280938002511 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 1280938002512 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1280938002513 Low-spin heme binding site [chemical binding]; other site 1280938002514 Putative water exit pathway; other site 1280938002515 Binuclear center (active site) [active] 1280938002516 Putative proton exit pathway; other site 1280938002517 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 1280938002518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938002519 DNA-binding site [nucleotide binding]; DNA binding site 1280938002520 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 1280938002521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938002522 homodimer interface [polypeptide binding]; other site 1280938002523 catalytic residue [active] 1280938002524 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1280938002525 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1280938002526 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1280938002527 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1280938002528 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1280938002529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1280938002530 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1280938002531 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1280938002532 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1280938002533 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 1280938002534 putative substrate translocation pore; other site 1280938002535 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 1280938002536 putative substrate binding pocket [chemical binding]; other site 1280938002537 trimer interface [polypeptide binding]; other site 1280938002538 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1280938002539 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1280938002540 putative active site [active] 1280938002541 putative metal binding site [ion binding]; other site 1280938002542 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1280938002543 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1280938002544 NAD binding site [chemical binding]; other site 1280938002545 catalytic residues [active] 1280938002546 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1280938002547 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1280938002548 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 1280938002549 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1280938002550 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1280938002551 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938002552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938002553 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1280938002554 Phosphotransferase enzyme family; Region: APH; pfam01636 1280938002555 active site 1280938002556 ATP binding site [chemical binding]; other site 1280938002557 antibiotic binding site [chemical binding]; other site 1280938002558 Predicted periplasmic protein [Function unknown]; Region: COG3904 1280938002559 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1280938002560 GAF domain; Region: GAF; pfam01590 1280938002561 Phytochrome region; Region: PHY; pfam00360 1280938002562 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 1280938002563 dimer interface [polypeptide binding]; other site 1280938002564 phosphorylation site [posttranslational modification] 1280938002565 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 1280938002566 ATP binding site [chemical binding]; other site 1280938002567 Mg2+ binding site [ion binding]; other site 1280938002568 G-X-G motif; other site 1280938002569 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 1280938002570 heme binding pocket [chemical binding]; other site 1280938002571 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1280938002572 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1280938002573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938002574 Coenzyme A binding pocket [chemical binding]; other site 1280938002575 putative arabinose transporter; Provisional; Region: PRK03545 1280938002576 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 1280938002577 putative substrate translocation pore; other site 1280938002578 CHASE domain; Region: CHASE; cl01369 1280938002579 PAS domain S-box; Region: sensory_box; TIGR00229 1280938002580 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 1280938002581 putative active site [active] 1280938002582 heme pocket [chemical binding]; other site 1280938002583 PAS domain; Region: PAS_9; pfam13426 1280938002584 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 1280938002585 putative active site [active] 1280938002586 heme pocket [chemical binding]; other site 1280938002587 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 1280938002588 PAS fold; Region: PAS_3; pfam08447 1280938002589 putative active site [active] 1280938002590 heme pocket [chemical binding]; other site 1280938002591 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 1280938002592 dimer interface [polypeptide binding]; other site 1280938002593 phosphorylation site [posttranslational modification] 1280938002594 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 1280938002595 ATP binding site [chemical binding]; other site 1280938002596 Mg2+ binding site [ion binding]; other site 1280938002597 G-X-G motif; other site 1280938002598 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938002599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938002600 active site 1280938002601 phosphorylation site [posttranslational modification] 1280938002602 intermolecular recognition site; other site 1280938002603 dimerization interface [polypeptide binding]; other site 1280938002604 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938002605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938002606 active site 1280938002607 phosphorylation site [posttranslational modification] 1280938002608 intermolecular recognition site; other site 1280938002609 dimerization interface [polypeptide binding]; other site 1280938002610 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 1280938002611 putative binding surface; other site 1280938002612 active site 1280938002613 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1280938002614 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1280938002615 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938002616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938002617 The C-terminal substrate-domain of LysR-type transcriptional regulators for beta-lactamase genes, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_beta_lactamase; cd08484 1280938002618 putative dimerization interface [polypeptide binding]; other site 1280938002619 putative substrate binding pocket [chemical binding]; other site 1280938002620 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1280938002621 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1280938002622 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938002623 Zn2+ binding site [ion binding]; other site 1280938002624 Mg2+ binding site [ion binding]; other site 1280938002625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938002626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938002627 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 1280938002628 dimerization interface [polypeptide binding]; other site 1280938002629 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1280938002630 classical (c) SDRs; Region: SDR_c; cd05233 1280938002631 NAD(P) binding site [chemical binding]; other site 1280938002632 active site 1280938002633 choline dehydrogenase; Validated; Region: PRK02106 1280938002634 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1280938002635 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1280938002636 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938002637 classical (c) SDRs; Region: SDR_c; cd05233 1280938002638 NAD(P) binding site [chemical binding]; other site 1280938002639 active site 1280938002640 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1280938002641 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1280938002642 putative NAD(P) binding site [chemical binding]; other site 1280938002643 catalytic Zn binding site [ion binding]; other site 1280938002644 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 1280938002645 D-galactonate transporter; Region: 2A0114; TIGR00893 1280938002646 putative substrate translocation pore; other site 1280938002647 Cupin domain; Region: Cupin_2; pfam07883 1280938002648 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938002649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938002650 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 1280938002651 CoenzymeA binding site [chemical binding]; other site 1280938002652 subunit interaction site [polypeptide binding]; other site 1280938002653 PHB binding site; other site 1280938002654 Flavin Reductases; Region: FlaRed; cl00801 1280938002655 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 1280938002656 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1280938002657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 1280938002658 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1280938002659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938002660 NAD(P) binding site [chemical binding]; other site 1280938002661 active site 1280938002662 aminotransferase; Validated; Region: PRK07046 1280938002663 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 1280938002664 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938002665 catalytic residue [active] 1280938002666 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1280938002667 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1280938002668 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1280938002669 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1280938002670 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1280938002671 PapC N-terminal domain; Region: PapC_N; pfam13954 1280938002672 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1280938002673 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1280938002674 PapC C-terminal domain; Region: PapC_C; pfam13953 1280938002675 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1280938002676 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1280938002677 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1280938002678 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1280938002679 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1280938002680 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1280938002681 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938002682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938002683 active site 1280938002684 phosphorylation site [posttranslational modification] 1280938002685 intermolecular recognition site; other site 1280938002686 dimerization interface [polypeptide binding]; other site 1280938002687 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 1280938002688 DNA binding residues [nucleotide binding] 1280938002689 dimerization interface [polypeptide binding]; other site 1280938002690 short chain dehydrogenase; Provisional; Region: PRK08177 1280938002691 NAD(P) binding site [chemical binding]; other site 1280938002692 active site 1280938002693 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938002694 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1280938002695 acyl-activating enzyme (AAE) consensus motif; other site 1280938002696 AMP binding site [chemical binding]; other site 1280938002697 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938002698 Putative dehydrogenase domain of multifunctional non-ribosomal peptide synthetases and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3320 1280938002699 Male sterility protein; Region: NAD_binding_4; pfam07993 1280938002700 NAD(P) binding site [chemical binding]; other site 1280938002701 active site 1280938002702 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 1280938002703 non-specific DNA binding site [nucleotide binding]; other site 1280938002704 salt bridge; other site 1280938002705 sequence-specific DNA binding site [nucleotide binding]; other site 1280938002706 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1280938002707 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 1280938002708 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938002709 DNA binding residues [nucleotide binding] 1280938002710 dimerization interface [polypeptide binding]; other site 1280938002711 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1280938002712 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1280938002713 NAD(P) binding site [chemical binding]; other site 1280938002714 catalytic residues [active] 1280938002715 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1280938002716 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 1280938002717 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1280938002718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938002719 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1280938002720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938002721 NAD(P) binding site [chemical binding]; other site 1280938002722 active site 1280938002723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938002724 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1280938002725 NAD(P) binding site [chemical binding]; other site 1280938002726 active site 1280938002727 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 1280938002728 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1280938002729 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1280938002730 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1280938002731 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1280938002732 FtsX-like permease family; Region: FtsX; pfam02687 1280938002733 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1280938002734 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1280938002735 Walker A/P-loop; other site 1280938002736 ATP binding site [chemical binding]; other site 1280938002737 Q-loop/lid; other site 1280938002738 ABC transporter signature motif; other site 1280938002739 Walker B; other site 1280938002740 D-loop; other site 1280938002741 H-loop/switch region; other site 1280938002742 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1280938002743 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1280938002744 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 1280938002745 Predicted methyltransferase [General function prediction only]; Region: COG3897 1280938002746 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 1280938002747 S-adenosylmethionine binding site [chemical binding]; other site 1280938002748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1280938002749 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1280938002750 ATP cone domain; Region: ATP-cone; pfam03477 1280938002751 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1280938002752 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 1280938002753 catalytic motif [active] 1280938002754 Zn binding site [ion binding]; other site 1280938002755 RibD C-terminal domain; Region: RibD_C; cl17279 1280938002756 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1280938002757 Lumazine binding domain; Region: Lum_binding; pfam00677 1280938002758 Lumazine binding domain; Region: Lum_binding; pfam00677 1280938002759 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1280938002760 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1280938002761 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1280938002762 dimerization interface [polypeptide binding]; other site 1280938002763 active site 1280938002764 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 1280938002765 homopentamer interface [polypeptide binding]; other site 1280938002766 active site 1280938002767 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1280938002768 thiamine monophosphate kinase; Provisional; Region: PRK05731 1280938002769 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 1280938002770 ATP binding site [chemical binding]; other site 1280938002771 dimerization interface [polypeptide binding]; other site 1280938002772 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1280938002773 tetramer interfaces [polypeptide binding]; other site 1280938002774 binuclear metal-binding site [ion binding]; other site 1280938002775 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938002776 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1280938002777 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1280938002778 catalytic motif [active] 1280938002779 Catalytic residue [active] 1280938002780 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 1280938002781 dimerization interface [polypeptide binding]; other site 1280938002782 active site 1280938002783 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1280938002784 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 1280938002785 cobalamin binding residues [chemical binding]; other site 1280938002786 putative BtuC binding residues; other site 1280938002787 dimer interface [polypeptide binding]; other site 1280938002788 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1280938002789 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 1280938002790 TPP-binding site; other site 1280938002791 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 1280938002792 PYR/PP interface [polypeptide binding]; other site 1280938002793 dimer interface [polypeptide binding]; other site 1280938002794 TPP binding site [chemical binding]; other site 1280938002795 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1280938002796 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1280938002797 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1280938002798 substrate binding pocket [chemical binding]; other site 1280938002799 chain length determination region; other site 1280938002800 substrate-Mg2+ binding site; other site 1280938002801 catalytic residues [active] 1280938002802 aspartate-rich region 1; other site 1280938002803 active site lid residues [active] 1280938002804 aspartate-rich region 2; other site 1280938002805 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1280938002806 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1280938002807 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 1280938002808 putative active site pocket [active] 1280938002809 metal binding site [ion binding]; metal-binding site 1280938002810 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1280938002811 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 1280938002812 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1280938002813 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1280938002814 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1280938002815 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1280938002816 Walker A/P-loop; other site 1280938002817 ATP binding site [chemical binding]; other site 1280938002818 Q-loop/lid; other site 1280938002819 ABC transporter signature motif; other site 1280938002820 Walker B; other site 1280938002821 D-loop; other site 1280938002822 H-loop/switch region; other site 1280938002823 CHASE2 domain; Region: CHASE2; pfam05226 1280938002824 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1280938002825 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1280938002826 PAS domain; Region: PAS; smart00091 1280938002827 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 1280938002828 dimer interface [polypeptide binding]; other site 1280938002829 phosphorylation site [posttranslational modification] 1280938002830 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 1280938002831 ATP binding site [chemical binding]; other site 1280938002832 Mg2+ binding site [ion binding]; other site 1280938002833 G-X-G motif; other site 1280938002834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1280938002835 FecR protein; Region: FecR; pfam04773 1280938002836 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1280938002837 amphipathic channel; other site 1280938002838 Asn-Pro-Ala signature motifs; other site 1280938002839 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938002840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938002841 active site 1280938002842 phosphorylation site [posttranslational modification] 1280938002843 intermolecular recognition site; other site 1280938002844 dimerization interface [polypeptide binding]; other site 1280938002845 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 1280938002846 DNA binding site [nucleotide binding] 1280938002847 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 1280938002848 dimer interface [polypeptide binding]; other site 1280938002849 substrate binding site [chemical binding]; other site 1280938002850 metal binding sites [ion binding]; metal-binding site 1280938002851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3228 1280938002852 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1280938002853 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1280938002854 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1280938002855 substrate binding site [chemical binding]; other site 1280938002856 activation loop (A-loop); other site 1280938002857 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938002858 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 1280938002859 substrate binding pocket [chemical binding]; other site 1280938002860 membrane-bound complex binding site; other site 1280938002861 hinge residues; other site 1280938002862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938002863 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1280938002864 Coenzyme A binding pocket [chemical binding]; other site 1280938002865 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1280938002866 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1280938002867 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1280938002868 ethanolamine permease; Region: 2A0305; TIGR00908 1280938002869 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1280938002870 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1280938002871 NAD(P) binding site [chemical binding]; other site 1280938002872 catalytic residues [active] 1280938002873 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1280938002874 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 1280938002875 putative active site [active] 1280938002876 heme pocket [chemical binding]; other site 1280938002877 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 1280938002878 Walker A motif; other site 1280938002879 ATP binding site [chemical binding]; other site 1280938002880 Walker B motif; other site 1280938002881 arginine finger; other site 1280938002882 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938002883 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1280938002884 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1280938002885 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1280938002886 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1280938002887 aromatic acid decarboxylase; Validated; Region: PRK05920 1280938002888 Flavoprotein; Region: Flavoprotein; pfam02441 1280938002889 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5645 1280938002890 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1280938002891 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1280938002892 NAD binding site [chemical binding]; other site 1280938002893 active site 1280938002894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1280938002895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1280938002896 MORN repeat; Region: MORN; cl14787 1280938002897 Peptidase C13 family; Region: Peptidase_C13; pfam01650 1280938002898 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 1280938002899 putative active site [active] 1280938002900 putative catalytic site [active] 1280938002901 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1280938002902 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1280938002903 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1280938002904 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1280938002905 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 1280938002906 active site 1280938002907 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1280938002908 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1280938002909 active site 1280938002910 DNA binding site [nucleotide binding] 1280938002911 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1280938002912 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1280938002913 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938002914 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1280938002915 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1280938002916 putative catalytic cysteine [active] 1280938002917 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1280938002918 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1280938002919 active site 1280938002920 (T/H)XGH motif; other site 1280938002921 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1280938002922 Uncharacterized conserved protein [Function unknown]; Region: COG1576 1280938002923 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1280938002924 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1280938002925 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1280938002926 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1280938002927 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1280938002928 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 1280938002929 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938002930 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1280938002931 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1280938002932 Sporulation related domain; Region: SPOR; pfam05036 1280938002933 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1280938002934 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1280938002935 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1280938002936 hypothetical protein; Provisional; Region: PRK00341 1280938002937 lipoate-protein ligase B; Provisional; Region: PRK14342 1280938002938 lipoyl synthase; Provisional; Region: PRK05481 1280938002939 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 1280938002940 FeS/SAM binding site; other site 1280938002941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938002942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938002943 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 1280938002944 dimerization interface [polypeptide binding]; other site 1280938002945 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938002946 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1280938002947 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 1280938002948 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938002949 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1280938002950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1280938002951 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1280938002952 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1280938002953 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 1280938002954 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1280938002955 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1280938002956 HIGH motif; other site 1280938002957 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1280938002958 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1280938002959 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1280938002960 active site 1280938002961 KMSKS motif; other site 1280938002962 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1280938002963 tRNA binding surface [nucleotide binding]; other site 1280938002964 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1280938002965 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 1280938002966 putative active site [active] 1280938002967 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1280938002968 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1280938002969 putative active site [active] 1280938002970 catalytic triad [active] 1280938002971 putative dimer interface [polypeptide binding]; other site 1280938002972 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1280938002973 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 1280938002974 Transporter associated domain; Region: CorC_HlyC; smart01091 1280938002975 metal-binding heat shock protein; Provisional; Region: PRK00016 1280938002976 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1280938002977 PhoH-like protein; Region: PhoH; pfam02562 1280938002978 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1280938002979 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1280938002980 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 1280938002981 FeS/SAM binding site; other site 1280938002982 TRAM domain; Region: TRAM; pfam01938 1280938002983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4517 1280938002984 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938002985 Sel1-like repeats; Region: SEL1; smart00671 1280938002986 Sel1-like repeats; Region: SEL1; smart00671 1280938002987 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1280938002988 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 1280938002989 inhibitor-cofactor binding pocket; inhibition site 1280938002990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938002991 catalytic residue [active] 1280938002992 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 1280938002993 thiamine phosphate binding site [chemical binding]; other site 1280938002994 active site 1280938002995 pyrophosphate binding site [ion binding]; other site 1280938002996 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 1280938002997 dimer interface [polypeptide binding]; other site 1280938002998 substrate binding site [chemical binding]; other site 1280938002999 ATP binding site [chemical binding]; other site 1280938003000 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1280938003001 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1280938003002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938003003 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 1280938003004 dimer interface [polypeptide binding]; other site 1280938003005 phosphorylation site [posttranslational modification] 1280938003006 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 1280938003007 ATP binding site [chemical binding]; other site 1280938003008 Mg2+ binding site [ion binding]; other site 1280938003009 G-X-G motif; other site 1280938003010 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938003011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003012 active site 1280938003013 phosphorylation site [posttranslational modification] 1280938003014 intermolecular recognition site; other site 1280938003015 dimerization interface [polypeptide binding]; other site 1280938003016 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938003017 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938003018 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1280938003019 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938003020 active site 1280938003021 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 1280938003022 CoenzymeA binding site [chemical binding]; other site 1280938003023 subunit interaction site [polypeptide binding]; other site 1280938003024 PHB binding site; other site 1280938003025 AMP nucleosidase; Provisional; Region: PRK08292 1280938003026 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1280938003027 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1280938003028 SEC-C motif; Region: SEC-C; pfam02810 1280938003029 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1280938003030 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1280938003031 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1280938003032 pseudouridine synthase; Region: TIGR00093 1280938003033 active site 1280938003034 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 1280938003035 heme-binding site [chemical binding]; other site 1280938003036 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1280938003037 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938003038 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 1280938003039 putative DNA binding site [nucleotide binding]; other site 1280938003040 putative Zn2+ binding site [ion binding]; other site 1280938003041 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938003042 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1280938003043 Cation efflux family; Region: Cation_efflux; cl00316 1280938003044 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1280938003045 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 1280938003046 ATP binding site [chemical binding]; other site 1280938003047 putative Mg++ binding site [ion binding]; other site 1280938003048 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 1280938003049 nucleotide binding region [chemical binding]; other site 1280938003050 ATP-binding site [chemical binding]; other site 1280938003051 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1280938003052 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1280938003053 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938003054 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1280938003055 putative metal binding site [ion binding]; other site 1280938003056 short chain dehydrogenase; Provisional; Region: PRK06181 1280938003057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938003058 NAD(P) binding site [chemical binding]; other site 1280938003059 active site 1280938003060 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 1280938003061 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1280938003062 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 1280938003063 active site 1280938003064 dimer interface [polypeptide binding]; other site 1280938003065 non-prolyl cis peptide bond; other site 1280938003066 insertion regions; other site 1280938003067 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938003068 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 1280938003069 catalytic triad [active] 1280938003070 conserved cis-peptide bond; other site 1280938003071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 1280938003072 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1280938003073 LabA_like proteins; Region: LabA; cd10911 1280938003074 putative metal binding site [ion binding]; other site 1280938003075 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 1280938003076 ATP binding site [chemical binding]; other site 1280938003077 Mg++ binding site [ion binding]; other site 1280938003078 motif III; other site 1280938003079 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 1280938003080 nucleotide binding region [chemical binding]; other site 1280938003081 ATP-binding site [chemical binding]; other site 1280938003082 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938003083 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1280938003084 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938003085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003086 active site 1280938003087 phosphorylation site [posttranslational modification] 1280938003088 intermolecular recognition site; other site 1280938003089 dimerization interface [polypeptide binding]; other site 1280938003090 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 1280938003091 DNA binding residues [nucleotide binding] 1280938003092 dimerization interface [polypeptide binding]; other site 1280938003093 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938003094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003095 active site 1280938003096 phosphorylation site [posttranslational modification] 1280938003097 intermolecular recognition site; other site 1280938003098 dimerization interface [polypeptide binding]; other site 1280938003099 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 1280938003100 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1280938003101 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 1280938003102 substrate binding pocket [chemical binding]; other site 1280938003103 membrane-bound complex binding site; other site 1280938003104 hinge residues; other site 1280938003105 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 1280938003106 substrate binding pocket [chemical binding]; other site 1280938003107 membrane-bound complex binding site; other site 1280938003108 hinge residues; other site 1280938003109 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 1280938003110 putative active site [active] 1280938003111 heme pocket [chemical binding]; other site 1280938003112 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 1280938003113 dimer interface [polypeptide binding]; other site 1280938003114 phosphorylation site [posttranslational modification] 1280938003115 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 1280938003116 ATP binding site [chemical binding]; other site 1280938003117 Mg2+ binding site [ion binding]; other site 1280938003118 G-X-G motif; other site 1280938003119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003120 active site 1280938003121 phosphorylation site [posttranslational modification] 1280938003122 intermolecular recognition site; other site 1280938003123 dimerization interface [polypeptide binding]; other site 1280938003124 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 1280938003125 putative binding surface; other site 1280938003126 active site 1280938003127 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1280938003128 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1280938003129 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938003130 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 1280938003131 NADPH bind site [chemical binding]; other site 1280938003132 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 1280938003133 putative FMN binding site [chemical binding]; other site 1280938003134 NADPH bind site [chemical binding]; other site 1280938003135 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1280938003136 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 1280938003137 active site 1280938003138 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 1280938003139 catalytic triad [active] 1280938003140 dimer interface [polypeptide binding]; other site 1280938003141 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 1280938003142 active site 1280938003143 motif I; other site 1280938003144 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1280938003145 motif II; other site 1280938003146 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 1280938003147 IHF dimer interface [polypeptide binding]; other site 1280938003148 IHF - DNA interface [nucleotide binding]; other site 1280938003149 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938003150 active site 1280938003151 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1280938003152 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 1280938003153 substrate binding pocket [chemical binding]; other site 1280938003154 membrane-bound complex binding site; other site 1280938003155 hinge residues; other site 1280938003156 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 1280938003157 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1280938003158 Walker A/P-loop; other site 1280938003159 ATP binding site [chemical binding]; other site 1280938003160 Q-loop/lid; other site 1280938003161 ABC transporter signature motif; other site 1280938003162 Walker B; other site 1280938003163 D-loop; other site 1280938003164 H-loop/switch region; other site 1280938003165 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1280938003166 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 1280938003167 dimer interface [polypeptide binding]; other site 1280938003168 conserved gate region; other site 1280938003169 putative PBP binding loops; other site 1280938003170 ABC-ATPase subunit interface; other site 1280938003171 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1280938003172 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1280938003173 Predicted membrane protein [Function unknown]; Region: COG1297 1280938003174 BCCT family transporter; Region: BCCT; cl00569 1280938003175 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1280938003176 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 1280938003177 Walker A motif; other site 1280938003178 ATP binding site [chemical binding]; other site 1280938003179 Walker B motif; other site 1280938003180 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1280938003181 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1280938003182 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1280938003183 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1280938003184 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1280938003185 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1280938003186 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938003187 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938003188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938003189 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 1280938003190 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938003191 putative substrate translocation pore; other site 1280938003192 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1280938003193 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 1280938003194 dimer interface [polypeptide binding]; other site 1280938003195 active site 1280938003196 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1280938003197 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1280938003198 dimer interface [polypeptide binding]; other site 1280938003199 acyl-activating enzyme (AAE) consensus motif; other site 1280938003200 putative active site [active] 1280938003201 AMP binding site [chemical binding]; other site 1280938003202 putative CoA binding site [chemical binding]; other site 1280938003203 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1280938003204 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1280938003205 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1280938003206 AAA ATPase domain; Region: AAA_16; pfam13191 1280938003207 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 1280938003208 DNA binding residues [nucleotide binding] 1280938003209 dimerization interface [polypeptide binding]; other site 1280938003210 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1280938003211 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 1280938003212 metal-binding site [ion binding] 1280938003213 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1280938003214 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 1280938003215 metal-binding site [ion binding] 1280938003216 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1280938003217 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1280938003218 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1280938003219 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1280938003220 putative active site [active] 1280938003221 PhoH-like protein; Region: PhoH; pfam02562 1280938003222 CHAD domain; Region: CHAD; pfam05235 1280938003223 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1280938003224 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1280938003225 active site 1280938003226 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 1280938003227 trimer interface [polypeptide binding]; other site 1280938003228 dimer interface [polypeptide binding]; other site 1280938003229 putative active site [active] 1280938003230 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1280938003231 MoaE interaction surface [polypeptide binding]; other site 1280938003232 MoeB interaction surface [polypeptide binding]; other site 1280938003233 thiocarboxylated glycine; other site 1280938003234 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 1280938003235 MoaE homodimer interface [polypeptide binding]; other site 1280938003236 MoaD interaction [polypeptide binding]; other site 1280938003237 active site residues [active] 1280938003238 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 1280938003239 MPT binding site; other site 1280938003240 trimer interface [polypeptide binding]; other site 1280938003241 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1280938003242 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 1280938003243 dimer interface [polypeptide binding]; other site 1280938003244 putative functional site; other site 1280938003245 putative MPT binding site; other site 1280938003246 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1280938003247 Peptidase family U32; Region: Peptidase_U32; pfam01136 1280938003248 putative protease; Provisional; Region: PRK15447 1280938003249 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1280938003250 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1280938003251 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1280938003252 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1280938003253 putative active site [active] 1280938003254 putative metal binding site [ion binding]; other site 1280938003255 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1280938003256 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1280938003257 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1280938003258 generic binding surface I; other site 1280938003259 generic binding surface II; other site 1280938003260 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1280938003261 putative active site [active] 1280938003262 putative catalytic site [active] 1280938003263 putative Mg binding site IVb [ion binding]; other site 1280938003264 putative phosphate binding site [ion binding]; other site 1280938003265 putative DNA binding site [nucleotide binding]; other site 1280938003266 putative Mg binding site IVa [ion binding]; other site 1280938003267 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1280938003268 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1280938003269 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1280938003270 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1280938003271 G1 box; other site 1280938003272 putative GEF interaction site [polypeptide binding]; other site 1280938003273 GTP/Mg2+ binding site [chemical binding]; other site 1280938003274 Switch I region; other site 1280938003275 G2 box; other site 1280938003276 G3 box; other site 1280938003277 Switch II region; other site 1280938003278 G4 box; other site 1280938003279 G5 box; other site 1280938003280 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 1280938003281 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1280938003282 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1280938003283 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 1280938003284 N-terminal plug; other site 1280938003285 ligand-binding site [chemical binding]; other site 1280938003286 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938003287 FecR protein; Region: FecR; pfam04773 1280938003288 RNA polymerase sigma factor; Provisional; Region: PRK12528 1280938003289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938003290 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 1280938003291 DNA binding residues [nucleotide binding] 1280938003292 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1280938003293 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938003294 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1280938003295 EamA-like transporter family; Region: EamA; pfam00892 1280938003296 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1280938003297 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1280938003298 dimerization interface [polypeptide binding]; other site 1280938003299 ligand binding site [chemical binding]; other site 1280938003300 NADP binding site [chemical binding]; other site 1280938003301 catalytic site [active] 1280938003302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938003303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938003304 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 1280938003305 putative effector binding pocket; other site 1280938003306 dimerization interface [polypeptide binding]; other site 1280938003307 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1280938003308 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1280938003309 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1280938003310 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1280938003311 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1280938003312 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938003313 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938003314 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1280938003315 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1280938003316 Walker A/P-loop; other site 1280938003317 ATP binding site [chemical binding]; other site 1280938003318 Q-loop/lid; other site 1280938003319 ABC transporter signature motif; other site 1280938003320 Walker B; other site 1280938003321 D-loop; other site 1280938003322 H-loop/switch region; other site 1280938003323 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 1280938003324 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 1280938003325 dimer interface [polypeptide binding]; other site 1280938003326 conserved gate region; other site 1280938003327 ABC-ATPase subunit interface; other site 1280938003328 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1280938003329 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1280938003330 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1280938003331 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 1280938003332 ABC-ATPase subunit interface; other site 1280938003333 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1280938003334 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1280938003335 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1280938003336 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1280938003337 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1280938003338 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1280938003339 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1280938003340 short chain dehydrogenase; Provisional; Region: PRK05693 1280938003341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938003342 NAD(P) binding site [chemical binding]; other site 1280938003343 active site 1280938003344 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 1280938003345 Uncharacterized conserved protein [Function unknown]; Region: COG4273 1280938003346 transcriptional regulator NarL; Provisional; Region: PRK10651 1280938003347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003348 active site 1280938003349 phosphorylation site [posttranslational modification] 1280938003350 intermolecular recognition site; other site 1280938003351 dimerization interface [polypeptide binding]; other site 1280938003352 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 1280938003353 DNA binding residues [nucleotide binding] 1280938003354 dimerization interface [polypeptide binding]; other site 1280938003355 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1280938003356 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1280938003357 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 1280938003358 dimerization interface [polypeptide binding]; other site 1280938003359 Histidine kinase; Region: HisKA_3; pfam07730 1280938003360 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 1280938003361 ATP binding site [chemical binding]; other site 1280938003362 Mg2+ binding site [ion binding]; other site 1280938003363 G-X-G motif; other site 1280938003364 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1280938003365 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 1280938003366 putative substrate translocation pore; other site 1280938003367 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1280938003368 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1280938003369 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1280938003370 [4Fe-4S] binding site [ion binding]; other site 1280938003371 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1280938003372 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1280938003373 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1280938003374 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1280938003375 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1280938003376 molybdopterin cofactor binding site; other site 1280938003377 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1280938003378 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1280938003379 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1280938003380 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1280938003381 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1280938003382 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1280938003383 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 1280938003384 FeS/SAM binding site; other site 1280938003385 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1280938003386 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 1280938003387 Moco binding site; other site 1280938003388 metal coordination site [ion binding]; other site 1280938003389 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 1280938003390 N-terminal plug; other site 1280938003391 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1280938003392 ligand-binding site [chemical binding]; other site 1280938003393 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1280938003394 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 1280938003395 substrate binding pocket [chemical binding]; other site 1280938003396 membrane-bound complex binding site; other site 1280938003397 hinge residues; other site 1280938003398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1280938003399 YheO-like PAS domain; Region: PAS_6; pfam08348 1280938003400 HTH domain; Region: HTH_22; pfam13309 1280938003401 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938003402 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1280938003403 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1280938003404 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1280938003405 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1280938003406 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 1280938003407 ATP binding site [chemical binding]; other site 1280938003408 Mg++ binding site [ion binding]; other site 1280938003409 motif III; other site 1280938003410 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 1280938003411 nucleotide binding region [chemical binding]; other site 1280938003412 ATP-binding site [chemical binding]; other site 1280938003413 AMP-binding domain protein; Validated; Region: PRK07529 1280938003414 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938003415 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1280938003416 acyl-activating enzyme (AAE) consensus motif; other site 1280938003417 putative AMP binding site [chemical binding]; other site 1280938003418 putative active site [active] 1280938003419 putative CoA binding site [chemical binding]; other site 1280938003420 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1280938003421 putative hydrolase; Provisional; Region: PRK11460 1280938003422 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1280938003423 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 1280938003424 substrate binding pocket [chemical binding]; other site 1280938003425 membrane-bound complex binding site; other site 1280938003426 hinge residues; other site 1280938003427 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1280938003428 SnoaL-like domain; Region: SnoaL_2; pfam12680 1280938003429 GST_N family, Metaxin subfamily, Metaxin-like proteins; a heterogenous group of proteins, predominantly uncharacterized, with similarity to metaxins and GSTs. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It...; Region: GST_N_Metaxin_like; cd03080 1280938003430 putative C-terminal domain interface [polypeptide binding]; other site 1280938003431 putative GSH binding site [chemical binding]; other site 1280938003432 putative dimer interface [polypeptide binding]; other site 1280938003433 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 1280938003434 putative N-terminal domain interface [polypeptide binding]; other site 1280938003435 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1280938003436 putative active site [active] 1280938003437 GIY-YIG motif/motif A; other site 1280938003438 putative metal binding site [ion binding]; other site 1280938003439 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1280938003440 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 1280938003441 trimer interface [polypeptide binding]; other site 1280938003442 active site 1280938003443 substrate binding site [chemical binding]; other site 1280938003444 CoA binding site [chemical binding]; other site 1280938003445 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938003446 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 1280938003447 C-terminal domain interface [polypeptide binding]; other site 1280938003448 GSH binding site (G-site) [chemical binding]; other site 1280938003449 dimer interface [polypeptide binding]; other site 1280938003450 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1280938003451 substrate binding pocket (H-site) [chemical binding]; other site 1280938003452 N-terminal domain interface [polypeptide binding]; other site 1280938003453 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 1280938003454 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1280938003455 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1280938003456 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1280938003457 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1280938003458 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1280938003459 hydrophobic ligand binding site; other site 1280938003460 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 1280938003461 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938003462 catalytic triad [active] 1280938003463 dimer interface [polypeptide binding]; other site 1280938003464 conserved cis-peptide bond; other site 1280938003465 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938003466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938003467 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 1280938003468 dimerization interface [polypeptide binding]; other site 1280938003469 substrate binding pocket [chemical binding]; other site 1280938003470 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938003471 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 1280938003472 C-terminal domain interface [polypeptide binding]; other site 1280938003473 GSH binding site (G-site) [chemical binding]; other site 1280938003474 dimer interface [polypeptide binding]; other site 1280938003475 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1280938003476 dimer interface [polypeptide binding]; other site 1280938003477 N-terminal domain interface [polypeptide binding]; other site 1280938003478 putative substrate binding pocket (H-site) [chemical binding]; other site 1280938003479 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1280938003480 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1280938003481 putative NAD(P) binding site [chemical binding]; other site 1280938003482 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 1280938003483 dimerization interface [polypeptide binding]; other site 1280938003484 putative DNA binding site [nucleotide binding]; other site 1280938003485 putative Zn2+ binding site [ion binding]; other site 1280938003486 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 1280938003487 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1280938003488 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1280938003489 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 1280938003490 S-adenosylmethionine binding site [chemical binding]; other site 1280938003491 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 1280938003492 transmembrane helices; other site 1280938003493 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1280938003494 TrkA-C domain; Region: TrkA_C; pfam02080 1280938003495 TrkA-C domain; Region: TrkA_C; pfam02080 1280938003496 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 1280938003497 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1280938003498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938003499 Walker A/P-loop; other site 1280938003500 ATP binding site [chemical binding]; other site 1280938003501 Q-loop/lid; other site 1280938003502 ABC transporter signature motif; other site 1280938003503 Walker B; other site 1280938003504 D-loop; other site 1280938003505 H-loop/switch region; other site 1280938003506 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1280938003507 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1280938003508 TM-ABC transporter signature motif; other site 1280938003509 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1280938003510 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1280938003511 zinc binding site [ion binding]; other site 1280938003512 putative ligand binding site [chemical binding]; other site 1280938003513 Family description; Region: VCBS; pfam13517 1280938003514 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 1280938003515 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1280938003516 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1280938003517 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1280938003518 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1280938003519 HIGH motif; other site 1280938003520 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1280938003521 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1280938003522 active site 1280938003523 KMSKS motif; other site 1280938003524 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1280938003525 tRNA binding surface [nucleotide binding]; other site 1280938003526 anticodon binding site; other site 1280938003527 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1280938003528 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1280938003529 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1280938003530 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 1280938003531 interface (dimer of trimers) [polypeptide binding]; other site 1280938003532 Substrate-binding/catalytic site; other site 1280938003533 Zn-binding sites [ion binding]; other site 1280938003534 Cupin domain; Region: Cupin_2; pfam07883 1280938003535 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938003536 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938003537 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938003538 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1280938003539 Predicted permeases [General function prediction only]; Region: COG0795 1280938003540 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1280938003541 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1280938003542 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1280938003543 RDD family; Region: RDD; pfam06271 1280938003544 phage resistance protein; Provisional; Region: PRK10551 1280938003545 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1280938003546 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 1280938003547 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1280938003548 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1280938003549 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1280938003550 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1280938003551 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1280938003552 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1280938003553 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1280938003554 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1280938003555 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1280938003556 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1280938003557 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1280938003558 Protein export membrane protein; Region: SecD_SecF; cl14618 1280938003559 hypothetical protein; Provisional; Region: PRK11280 1280938003560 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1280938003561 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 1280938003562 active site 1280938003563 dimerization interface [polypeptide binding]; other site 1280938003564 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1280938003565 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1280938003566 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1280938003567 serine O-acetyltransferase; Region: cysE; TIGR01172 1280938003568 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 1280938003569 trimer interface [polypeptide binding]; other site 1280938003570 active site 1280938003571 substrate binding site [chemical binding]; other site 1280938003572 CoA binding site [chemical binding]; other site 1280938003573 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1280938003574 Rrf2 family protein; Region: rrf2_super; TIGR00738 1280938003575 cysteine desulfurase; Provisional; Region: PRK14012 1280938003576 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1280938003577 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938003578 catalytic residue [active] 1280938003579 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1280938003580 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1280938003581 trimerization site [polypeptide binding]; other site 1280938003582 active site 1280938003583 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 1280938003584 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1280938003585 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 1280938003586 HSP70 interaction site [polypeptide binding]; other site 1280938003587 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1280938003588 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1280938003589 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1280938003590 nucleotide binding site [chemical binding]; other site 1280938003591 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1280938003592 SBD interface [polypeptide binding]; other site 1280938003593 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1280938003594 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 1280938003595 catalytic loop [active] 1280938003596 iron binding site [ion binding]; other site 1280938003597 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1280938003598 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 1280938003599 active site 1280938003600 multimer interface [polypeptide binding]; other site 1280938003601 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1280938003602 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 1280938003603 FeS/SAM binding site; other site 1280938003604 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1280938003605 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 1280938003606 binding surface 1280938003607 TPR motif; other site 1280938003608 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 1280938003609 binding surface 1280938003610 TPR motif; other site 1280938003611 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1280938003612 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 1280938003613 non-specific DNA binding site [nucleotide binding]; other site 1280938003614 salt bridge; other site 1280938003615 sequence-specific DNA binding site [nucleotide binding]; other site 1280938003616 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1280938003617 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1280938003618 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1280938003619 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1280938003620 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1280938003621 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 1280938003622 dimer interface [polypeptide binding]; other site 1280938003623 motif 1; other site 1280938003624 active site 1280938003625 motif 2; other site 1280938003626 motif 3; other site 1280938003627 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 1280938003628 anticodon binding site; other site 1280938003629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1280938003630 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1280938003631 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1280938003632 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1280938003633 Trp docking motif [polypeptide binding]; other site 1280938003634 active site 1280938003635 GTP-binding protein Der; Reviewed; Region: PRK00093 1280938003636 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1280938003637 G1 box; other site 1280938003638 GTP/Mg2+ binding site [chemical binding]; other site 1280938003639 Switch I region; other site 1280938003640 G2 box; other site 1280938003641 Switch II region; other site 1280938003642 G3 box; other site 1280938003643 G4 box; other site 1280938003644 G5 box; other site 1280938003645 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1280938003646 G1 box; other site 1280938003647 GTP/Mg2+ binding site [chemical binding]; other site 1280938003648 Switch I region; other site 1280938003649 G2 box; other site 1280938003650 G3 box; other site 1280938003651 Switch II region; other site 1280938003652 G4 box; other site 1280938003653 G5 box; other site 1280938003654 methionine aminotransferase; Validated; Region: PRK09082 1280938003655 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 1280938003656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938003657 homodimer interface [polypeptide binding]; other site 1280938003658 catalytic residue [active] 1280938003659 C-N hydrolase family amidase; Provisional; Region: PRK10438 1280938003660 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1280938003661 putative active site [active] 1280938003662 catalytic triad [active] 1280938003663 dimer interface [polypeptide binding]; other site 1280938003664 multimer interface [polypeptide binding]; other site 1280938003665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1280938003666 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 1280938003667 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938003668 active site 1280938003669 catalytic tetrad [active] 1280938003670 2-isopropylmalate synthase; Validated; Region: PRK03739 1280938003671 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1280938003672 active site 1280938003673 catalytic residues [active] 1280938003674 metal binding site [ion binding]; metal-binding site 1280938003675 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1280938003676 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1280938003677 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 1280938003678 N-terminal plug; other site 1280938003679 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1280938003680 ligand-binding site [chemical binding]; other site 1280938003681 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1280938003682 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1280938003683 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1280938003684 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1280938003685 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1280938003686 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1280938003687 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938003688 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1280938003689 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1280938003690 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 1280938003691 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938003692 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 1280938003693 catalytic triad [active] 1280938003694 conserved cis-peptide bond; other site 1280938003695 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1280938003696 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1280938003697 conserved cys residue [active] 1280938003698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938003699 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1280938003700 DctM-like transporters; Region: DctM; pfam06808 1280938003701 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1280938003702 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1280938003703 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1280938003704 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1280938003705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938003706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938003707 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 1280938003708 dimerization interface [polypeptide binding]; other site 1280938003709 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1280938003710 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 1280938003711 generic binding surface II; other site 1280938003712 generic binding surface I; other site 1280938003713 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1280938003714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938003715 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1280938003716 dimerization interface [polypeptide binding]; other site 1280938003717 substrate binding pocket [chemical binding]; other site 1280938003718 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1280938003719 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1280938003720 active site 1280938003721 Zn binding site [ion binding]; other site 1280938003722 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1280938003723 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938003724 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 1280938003725 DNA binding residues [nucleotide binding] 1280938003726 dimerization interface [polypeptide binding]; other site 1280938003727 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1280938003728 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 1280938003729 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 1280938003730 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 1280938003731 active site 1280938003732 GMP synthase; Reviewed; Region: guaA; PRK00074 1280938003733 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1280938003734 AMP/PPi binding site [chemical binding]; other site 1280938003735 candidate oxyanion hole; other site 1280938003736 catalytic triad [active] 1280938003737 potential glutamine specificity residues [chemical binding]; other site 1280938003738 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 1280938003739 ATP Binding subdomain [chemical binding]; other site 1280938003740 Dimerization subdomain; other site 1280938003741 integrase; Provisional; Region: PRK09692 1280938003742 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 1280938003743 active site 1280938003744 Int/Topo IB signature motif; other site 1280938003745 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1280938003746 Replication initiator protein A; Region: RPA; pfam10134 1280938003747 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1280938003748 P-type conjugative transfer protein TrbJ; Region: TrbJ_Ti; TIGR02780 1280938003749 TraC-like protein; Region: TraC; cl06725 1280938003750 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 1280938003751 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1280938003752 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 1280938003753 non-specific DNA binding site [nucleotide binding]; other site 1280938003754 sequence-specific DNA binding site [nucleotide binding]; other site 1280938003755 salt bridge; other site 1280938003756 Competence protein CoiA-like family; Region: CoiA; cl11541 1280938003757 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1280938003758 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1280938003759 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1280938003760 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 1280938003761 nucleoside/Zn binding site; other site 1280938003762 dimer interface [polypeptide binding]; other site 1280938003763 catalytic motif [active] 1280938003764 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1280938003765 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1280938003766 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1280938003767 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1280938003768 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 1280938003769 substrate binding pocket [chemical binding]; other site 1280938003770 membrane-bound complex binding site; other site 1280938003771 hinge residues; other site 1280938003772 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 1280938003773 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938003774 catalytic residue [active] 1280938003775 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1280938003776 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 1280938003777 dimerization interface [polypeptide binding]; other site 1280938003778 ATP binding site [chemical binding]; other site 1280938003779 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 1280938003780 dimerization interface [polypeptide binding]; other site 1280938003781 ATP binding site [chemical binding]; other site 1280938003782 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1280938003783 putative active site [active] 1280938003784 catalytic triad [active] 1280938003785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1280938003786 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1280938003787 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1280938003788 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 1280938003789 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1280938003790 active site turn [active] 1280938003791 phosphorylation site [posttranslational modification] 1280938003792 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1280938003793 HPr interaction site; other site 1280938003794 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1280938003795 active site 1280938003796 phosphorylation site [posttranslational modification] 1280938003797 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 1280938003798 regulatory protein interface [polypeptide binding]; other site 1280938003799 active site 1280938003800 regulatory phosphorylation site [posttranslational modification]; other site 1280938003801 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1280938003802 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1280938003803 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1280938003804 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1280938003805 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1280938003806 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 1280938003807 dimer interface [polypeptide binding]; other site 1280938003808 active site 1280938003809 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 1280938003810 dimer interface [polypeptide binding]; other site 1280938003811 active site 1280938003812 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1280938003813 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1280938003814 active site 1280938003815 dimer interface [polypeptide binding]; other site 1280938003816 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1280938003817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938003818 DNA-binding site [nucleotide binding]; DNA binding site 1280938003819 UTRA domain; Region: UTRA; pfam07702 1280938003820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1280938003821 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1280938003822 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 1280938003823 nudix motif; other site 1280938003824 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 1280938003825 putative active site [active] 1280938003826 putative CoA binding site [chemical binding]; other site 1280938003827 nudix motif; other site 1280938003828 metal binding site [ion binding]; metal-binding site 1280938003829 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1280938003830 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 1280938003831 trimer interface [polypeptide binding]; other site 1280938003832 putative metal binding site [ion binding]; other site 1280938003833 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1280938003834 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1280938003835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938003836 ATP-grasp domain; Region: ATP-grasp; pfam02222 1280938003837 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 1280938003838 active site 1280938003839 catalytic triad [active] 1280938003840 oxyanion hole [active] 1280938003841 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 1280938003842 metabolite-proton symporter; Region: 2A0106; TIGR00883 1280938003843 putative substrate translocation pore; other site 1280938003844 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1280938003845 Domain of unknown function DUF21; Region: DUF21; pfam01595 1280938003846 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 1280938003847 Transporter associated domain; Region: CorC_HlyC; smart01091 1280938003848 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1280938003849 signal recognition particle protein; Provisional; Region: PRK10867 1280938003850 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1280938003851 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 1280938003852 P loop; other site 1280938003853 GTP binding site [chemical binding]; other site 1280938003854 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1280938003855 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1280938003856 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1280938003857 RimM N-terminal domain; Region: RimM; pfam01782 1280938003858 PRC-barrel domain; Region: PRC; pfam05239 1280938003859 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1280938003860 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1280938003861 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 1280938003862 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 1280938003863 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1280938003864 TrkA-N domain; Region: TrkA_N; pfam02254 1280938003865 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1280938003866 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 1280938003867 active site 1280938003868 Int/Topo IB signature motif; other site 1280938003869 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1280938003870 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 1280938003871 dimerization domain [polypeptide binding]; other site 1280938003872 dimer interface [polypeptide binding]; other site 1280938003873 catalytic residues [active] 1280938003874 homoserine dehydrogenase; Provisional; Region: PRK06349 1280938003875 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1280938003876 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1280938003877 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 1280938003878 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1280938003879 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 1280938003880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938003881 catalytic residue [active] 1280938003882 Chlorophyllase enzyme; Region: Chlorophyllase2; pfam12740 1280938003883 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1280938003884 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1280938003885 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1280938003886 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 1280938003887 nucleotide binding site [chemical binding]; other site 1280938003888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 1280938003889 PspA/IM30 family; Region: PspA_IM30; pfam04012 1280938003890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1280938003891 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 1280938003892 ATPase involved in DNA repair; Region: DUF3686; pfam12458 1280938003893 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1280938003894 linker region; other site 1280938003895 AAA domain; Region: AAA_22; pfam13401 1280938003896 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 1280938003897 Walker A motif; other site 1280938003898 ATP binding site [chemical binding]; other site 1280938003899 Walker B motif; other site 1280938003900 Catalytic domain of vertebrate phospholipase D6 and similar proteins; Region: PLDc_vPLD6_like; cd09171 1280938003901 PLD-like domain; Region: PLDc_2; pfam13091 1280938003902 putative active site [active] 1280938003903 catalytic site [active] 1280938003904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 1280938003905 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1280938003906 DHH family; Region: DHH; pfam01368 1280938003907 DHHA1 domain; Region: DHHA1; pfam02272 1280938003908 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1280938003909 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1280938003910 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1280938003911 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1280938003912 active site 1280938003913 Zn binding site [ion binding]; other site 1280938003914 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938003915 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1280938003916 active site 1280938003917 FMN binding site [chemical binding]; other site 1280938003918 substrate binding site [chemical binding]; other site 1280938003919 homotetramer interface [polypeptide binding]; other site 1280938003920 catalytic residue [active] 1280938003921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938003922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938003923 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 1280938003924 putative substrate translocation pore; other site 1280938003925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938003926 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1280938003927 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1280938003928 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938003929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003930 active site 1280938003931 phosphorylation site [posttranslational modification] 1280938003932 intermolecular recognition site; other site 1280938003933 dimerization interface [polypeptide binding]; other site 1280938003934 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 1280938003935 DNA binding residues [nucleotide binding] 1280938003936 dimerization interface [polypeptide binding]; other site 1280938003937 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938003938 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1280938003939 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1280938003940 putative metal binding site [ion binding]; other site 1280938003941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938003942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938003943 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 1280938003944 dimerization interface [polypeptide binding]; other site 1280938003945 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1280938003946 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1280938003947 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 1280938003948 putative substrate translocation pore; other site 1280938003949 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1280938003950 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1280938003951 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 1280938003952 dimerization interface [polypeptide binding]; other site 1280938003953 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938003954 dimer interface [polypeptide binding]; other site 1280938003955 putative CheW interface [polypeptide binding]; other site 1280938003956 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1280938003957 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1280938003958 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 1280938003959 S-adenosylmethionine binding site [chemical binding]; other site 1280938003960 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1280938003961 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 1280938003962 putative binding surface; other site 1280938003963 active site 1280938003964 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1280938003965 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 1280938003966 ATP binding site [chemical binding]; other site 1280938003967 Mg2+ binding site [ion binding]; other site 1280938003968 G-X-G motif; other site 1280938003969 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1280938003970 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938003971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003972 active site 1280938003973 phosphorylation site [posttranslational modification] 1280938003974 intermolecular recognition site; other site 1280938003975 dimerization interface [polypeptide binding]; other site 1280938003976 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1280938003977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003978 active site 1280938003979 phosphorylation site [posttranslational modification] 1280938003980 intermolecular recognition site; other site 1280938003981 CheB methylesterase; Region: CheB_methylest; pfam01339 1280938003982 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938003983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938003984 active site 1280938003985 phosphorylation site [posttranslational modification] 1280938003986 intermolecular recognition site; other site 1280938003987 dimerization interface [polypeptide binding]; other site 1280938003988 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938003989 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938003990 metal binding site [ion binding]; metal-binding site 1280938003991 active site 1280938003992 I-site; other site 1280938003993 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1280938003994 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1280938003995 RF-1 domain; Region: RF-1; pfam00472 1280938003996 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1280938003997 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 1280938003998 dimer interface [polypeptide binding]; other site 1280938003999 putative anticodon binding site; other site 1280938004000 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 1280938004001 motif 1; other site 1280938004002 active site 1280938004003 motif 2; other site 1280938004004 motif 3; other site 1280938004005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1280938004006 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1280938004007 Uncharacterized conserved protein [Function unknown]; Region: COG2013 1280938004008 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 1280938004009 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938004010 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938004011 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938004012 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1280938004013 putative ADP-ribose binding site [chemical binding]; other site 1280938004014 putative active site [active] 1280938004015 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938004016 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938004017 ligand binding site [chemical binding]; other site 1280938004018 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1280938004019 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1280938004020 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 1280938004021 metal-binding site [ion binding] 1280938004022 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1280938004023 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1280938004024 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1280938004025 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1280938004026 DNA binding residues [nucleotide binding] 1280938004027 dimer interface [polypeptide binding]; other site 1280938004028 putative metal binding site [ion binding]; other site 1280938004029 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1280938004030 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1280938004031 adenylate kinase; Reviewed; Region: adk; PRK00279 1280938004032 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 1280938004033 AMP-binding site [chemical binding]; other site 1280938004034 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1280938004035 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1280938004036 Glycoprotease family; Region: Peptidase_M22; pfam00814 1280938004037 Protein of unknown function DUF72; Region: DUF72; cl00777 1280938004038 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1280938004039 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 1280938004040 tetramer interface [polypeptide binding]; other site 1280938004041 active site 1280938004042 Mg2+/Mn2+ binding site [ion binding]; other site 1280938004043 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1280938004044 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1280938004045 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1280938004046 Cytochrome P450; Region: p450; cl12078 1280938004047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938004048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938004049 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1280938004050 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938004051 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938004052 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938004053 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1280938004054 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1280938004055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1280938004056 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1280938004057 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1280938004058 putative acyl-acceptor binding pocket; other site 1280938004059 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1280938004060 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1280938004061 Walker A/P-loop; other site 1280938004062 ATP binding site [chemical binding]; other site 1280938004063 Q-loop/lid; other site 1280938004064 ABC transporter signature motif; other site 1280938004065 Walker B; other site 1280938004066 D-loop; other site 1280938004067 H-loop/switch region; other site 1280938004068 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1280938004069 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1280938004070 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 1280938004071 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1280938004072 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1280938004073 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1280938004074 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 1280938004075 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938004076 catalytic residue [active] 1280938004077 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1280938004078 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 1280938004079 putative trimer interface [polypeptide binding]; other site 1280938004080 putative CoA binding site [chemical binding]; other site 1280938004081 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938004082 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 1280938004083 ArsC family; Region: ArsC; pfam03960 1280938004084 putative catalytic residues [active] 1280938004085 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1280938004086 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1280938004087 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1280938004088 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 1280938004089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938004090 homodimer interface [polypeptide binding]; other site 1280938004091 catalytic residue [active] 1280938004092 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1280938004093 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1280938004094 metal binding triad; other site 1280938004095 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1280938004096 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938004097 Zn2+ binding site [ion binding]; other site 1280938004098 Mg2+ binding site [ion binding]; other site 1280938004099 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 1280938004100 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 1280938004101 methionine aminopeptidase; Provisional; Region: PRK08671 1280938004102 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 1280938004103 active site 1280938004104 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 1280938004105 rRNA interaction site [nucleotide binding]; other site 1280938004106 S8 interaction site; other site 1280938004107 putative laminin-1 binding site; other site 1280938004108 elongation factor Ts; Provisional; Region: tsf; PRK09377 1280938004109 UBA/TS-N domain; Region: UBA; pfam00627 1280938004110 Elongation factor TS; Region: EF_TS; pfam00889 1280938004111 Elongation factor TS; Region: EF_TS; pfam00889 1280938004112 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 1280938004113 putative nucleotide binding site [chemical binding]; other site 1280938004114 uridine monophosphate binding site [chemical binding]; other site 1280938004115 homohexameric interface [polypeptide binding]; other site 1280938004116 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1280938004117 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 1280938004118 hinge region; other site 1280938004119 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 1280938004120 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1280938004121 catalytic residue [active] 1280938004122 putative FPP diphosphate binding site; other site 1280938004123 putative FPP binding hydrophobic cleft; other site 1280938004124 dimer interface [polypeptide binding]; other site 1280938004125 putative IPP diphosphate binding site; other site 1280938004126 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1280938004127 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1280938004128 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1280938004129 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1280938004130 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1280938004131 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1280938004132 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 1280938004133 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1280938004134 active site 1280938004135 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 1280938004136 protein binding site [polypeptide binding]; other site 1280938004137 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 1280938004138 protein binding site [polypeptide binding]; other site 1280938004139 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 1280938004140 putative substrate binding region [chemical binding]; other site 1280938004141 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1280938004142 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1280938004143 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1280938004144 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1280938004145 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1280938004146 Surface antigen; Region: Bac_surface_Ag; pfam01103 1280938004147 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1280938004148 periplasmic chaperone; Provisional; Region: PRK10780 1280938004149 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1280938004150 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1280938004151 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 1280938004152 trimer interface [polypeptide binding]; other site 1280938004153 active site 1280938004154 UDP-GlcNAc binding site [chemical binding]; other site 1280938004155 lipid binding site [chemical binding]; lipid-binding site 1280938004156 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 1280938004157 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1280938004158 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 1280938004159 active site 1280938004160 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1280938004161 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1280938004162 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1280938004163 RNA/DNA hybrid binding site [nucleotide binding]; other site 1280938004164 active site 1280938004165 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1280938004166 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1280938004167 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1280938004168 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1280938004169 putative active site [active] 1280938004170 putative PHP Thumb interface [polypeptide binding]; other site 1280938004171 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 1280938004172 generic binding surface II; other site 1280938004173 generic binding surface I; other site 1280938004174 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1280938004175 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1280938004176 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 1280938004177 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1280938004178 Ligand Binding Site [chemical binding]; other site 1280938004179 TilS substrate binding domain; Region: TilS; pfam09179 1280938004180 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1280938004181 CTP synthetase; Validated; Region: pyrG; PRK05380 1280938004182 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 1280938004183 Catalytic site [active] 1280938004184 active site 1280938004185 UTP binding site [chemical binding]; other site 1280938004186 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1280938004187 active site 1280938004188 putative oxyanion hole; other site 1280938004189 catalytic triad [active] 1280938004190 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1280938004191 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1280938004192 enolase; Provisional; Region: eno; PRK00077 1280938004193 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 1280938004194 dimer interface [polypeptide binding]; other site 1280938004195 metal binding site [ion binding]; metal-binding site 1280938004196 substrate binding pocket [chemical binding]; other site 1280938004197 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1280938004198 Septum formation initiator; Region: DivIC; cl17659 1280938004199 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1280938004200 substrate binding site; other site 1280938004201 dimer interface; other site 1280938004202 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 1280938004203 CPxP motif; other site 1280938004204 putative inner membrane protein; Provisional; Region: PRK11099 1280938004205 Sulphur transport; Region: Sulf_transp; pfam04143 1280938004206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938004207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938004208 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 1280938004209 putative effector binding pocket; other site 1280938004210 putative dimerization interface [polypeptide binding]; other site 1280938004211 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1280938004212 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1280938004213 substrate binding site [chemical binding]; other site 1280938004214 catalytic Zn binding site [ion binding]; other site 1280938004215 NAD binding site [chemical binding]; other site 1280938004216 structural Zn binding site [ion binding]; other site 1280938004217 dimer interface [polypeptide binding]; other site 1280938004218 S-formylglutathione hydrolase; Region: PLN02442 1280938004219 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1280938004220 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 1280938004221 homotrimer interaction site [polypeptide binding]; other site 1280938004222 zinc binding site [ion binding]; other site 1280938004223 CDP-binding sites; other site 1280938004224 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1280938004225 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1280938004226 Permutation of conserved domain; other site 1280938004227 active site 1280938004228 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1280938004229 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1280938004230 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1280938004231 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 1280938004232 S-adenosylmethionine binding site [chemical binding]; other site 1280938004233 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938004234 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938004235 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1280938004236 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1280938004237 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938004238 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1280938004239 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 1280938004240 DNA binding residues [nucleotide binding] 1280938004241 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1280938004242 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1280938004243 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1280938004244 MutS domain I; Region: MutS_I; pfam01624 1280938004245 MutS domain II; Region: MutS_II; pfam05188 1280938004246 MutS domain III; Region: MutS_III; pfam05192 1280938004247 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1280938004248 Walker A/P-loop; other site 1280938004249 ATP binding site [chemical binding]; other site 1280938004250 Q-loop/lid; other site 1280938004251 ABC transporter signature motif; other site 1280938004252 Walker B; other site 1280938004253 D-loop; other site 1280938004254 H-loop/switch region; other site 1280938004255 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1280938004256 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1280938004257 recombinase A; Provisional; Region: recA; PRK09354 1280938004258 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 1280938004259 hexamer interface [polypeptide binding]; other site 1280938004260 Walker A motif; other site 1280938004261 ATP binding site [chemical binding]; other site 1280938004262 Walker B motif; other site 1280938004263 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1280938004264 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1280938004265 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1280938004266 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1280938004267 Beta-Casp domain; Region: Beta-Casp; smart01027 1280938004268 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1280938004269 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 1280938004270 XFP N-terminal domain; Region: XFP_N; pfam09364 1280938004271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 1280938004272 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1280938004273 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1280938004274 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938004275 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1280938004276 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 1280938004277 dimer interface [polypeptide binding]; other site 1280938004278 conserved gate region; other site 1280938004279 putative PBP binding loops; other site 1280938004280 ABC-ATPase subunit interface; other site 1280938004281 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1280938004282 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 1280938004283 dimer interface [polypeptide binding]; other site 1280938004284 conserved gate region; other site 1280938004285 putative PBP binding loops; other site 1280938004286 ABC-ATPase subunit interface; other site 1280938004287 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1280938004288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938004289 Walker A/P-loop; other site 1280938004290 ATP binding site [chemical binding]; other site 1280938004291 Q-loop/lid; other site 1280938004292 ABC transporter signature motif; other site 1280938004293 Walker B; other site 1280938004294 D-loop; other site 1280938004295 H-loop/switch region; other site 1280938004296 TOBE domain; Region: TOBE_2; pfam08402 1280938004297 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1280938004298 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1280938004299 EamA-like transporter family; Region: EamA; pfam00892 1280938004300 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938004301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938004302 active site 1280938004303 phosphorylation site [posttranslational modification] 1280938004304 intermolecular recognition site; other site 1280938004305 dimerization interface [polypeptide binding]; other site 1280938004306 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 1280938004307 DNA binding residues [nucleotide binding] 1280938004308 dimerization interface [polypeptide binding]; other site 1280938004309 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1280938004310 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1280938004311 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 1280938004312 active site 1280938004313 FMN binding site [chemical binding]; other site 1280938004314 substrate binding site [chemical binding]; other site 1280938004315 3Fe-4S cluster binding site [ion binding]; other site 1280938004316 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1280938004317 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1280938004318 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938004319 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 1280938004320 DNA binding residues [nucleotide binding] 1280938004321 dimerization interface [polypeptide binding]; other site 1280938004322 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1280938004323 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1280938004324 putative active site [active] 1280938004325 catalytic triad [active] 1280938004326 putative dimer interface [polypeptide binding]; other site 1280938004327 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1280938004328 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1280938004329 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1280938004330 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1280938004331 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 1280938004332 DNA binding site [nucleotide binding] 1280938004333 active site 1280938004334 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 1280938004335 metabolite-proton symporter; Region: 2A0106; TIGR00883 1280938004336 putative substrate translocation pore; other site 1280938004337 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938004338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938004339 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 1280938004340 putative dimerization interface [polypeptide binding]; other site 1280938004341 putative substrate binding pocket [chemical binding]; other site 1280938004342 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938004343 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1280938004344 active site 1280938004345 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1280938004346 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1280938004347 enoyl-CoA hydratase; Provisional; Region: PRK08138 1280938004348 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 1280938004349 substrate binding site [chemical binding]; other site 1280938004350 oxyanion hole (OAH) forming residues; other site 1280938004351 trimer interface [polypeptide binding]; other site 1280938004352 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1280938004353 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1280938004354 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938004355 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938004356 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 1280938004357 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 1280938004358 dimer interface [polypeptide binding]; other site 1280938004359 active site 1280938004360 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938004361 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1280938004362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938004363 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 1280938004364 putative dimerization interface [polypeptide binding]; other site 1280938004365 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938004366 GlpM protein; Region: GlpM; pfam06942 1280938004367 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1280938004368 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1280938004369 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1280938004370 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1280938004371 glycerol kinase; Provisional; Region: glpK; PRK00047 1280938004372 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1280938004373 N- and C-terminal domain interface [polypeptide binding]; other site 1280938004374 active site 1280938004375 MgATP binding site [chemical binding]; other site 1280938004376 catalytic site [active] 1280938004377 metal binding site [ion binding]; metal-binding site 1280938004378 glycerol binding site [chemical binding]; other site 1280938004379 homotetramer interface [polypeptide binding]; other site 1280938004380 homodimer interface [polypeptide binding]; other site 1280938004381 FBP binding site [chemical binding]; other site 1280938004382 protein IIAGlc interface [polypeptide binding]; other site 1280938004383 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1280938004384 amphipathic channel; other site 1280938004385 Asn-Pro-Ala signature motifs; other site 1280938004386 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 1280938004387 putative deacylase active site [active] 1280938004388 glycerol kinase; Region: glycerol_kin; TIGR01311 1280938004389 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1280938004390 N- and C-terminal domain interface [polypeptide binding]; other site 1280938004391 active site 1280938004392 MgATP binding site [chemical binding]; other site 1280938004393 catalytic site [active] 1280938004394 metal binding site [ion binding]; metal-binding site 1280938004395 glycerol binding site [chemical binding]; other site 1280938004396 homotetramer interface [polypeptide binding]; other site 1280938004397 homodimer interface [polypeptide binding]; other site 1280938004398 FBP binding site [chemical binding]; other site 1280938004399 protein IIAGlc interface [polypeptide binding]; other site 1280938004400 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1280938004401 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1280938004402 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 1280938004403 metal-binding site [ion binding] 1280938004404 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1280938004405 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938004406 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1280938004407 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 1280938004408 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1280938004409 putative substrate translocation pore; other site 1280938004410 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938004411 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938004412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938004413 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1280938004414 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1280938004415 tetrameric interface [polypeptide binding]; other site 1280938004416 NAD binding site [chemical binding]; other site 1280938004417 catalytic residues [active] 1280938004418 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1280938004419 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1280938004420 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1280938004421 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1280938004422 acyl-activating enzyme (AAE) consensus motif; other site 1280938004423 putative AMP binding site [chemical binding]; other site 1280938004424 putative active site [active] 1280938004425 putative CoA binding site [chemical binding]; other site 1280938004426 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1280938004427 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1280938004428 putative NAD(P) binding site [chemical binding]; other site 1280938004429 dimer interface [polypeptide binding]; other site 1280938004430 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1280938004431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938004432 transcriptional activator TtdR; Provisional; Region: PRK09801 1280938004433 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 1280938004434 putative effector binding pocket; other site 1280938004435 dimerization interface [polypeptide binding]; other site 1280938004436 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 1280938004437 RNAase interaction site [polypeptide binding]; other site 1280938004438 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1280938004439 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1280938004440 active site 1280938004441 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1280938004442 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1280938004443 DNA binding site [nucleotide binding] 1280938004444 domain linker motif; other site 1280938004445 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1280938004446 dimerization interface [polypeptide binding]; other site 1280938004447 ligand binding site [chemical binding]; other site 1280938004448 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1280938004449 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 1280938004450 active site 1280938004451 phosphorylation site [posttranslational modification] 1280938004452 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1280938004453 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 1280938004454 dimerization domain swap beta strand [polypeptide binding]; other site 1280938004455 regulatory protein interface [polypeptide binding]; other site 1280938004456 active site 1280938004457 regulatory phosphorylation site [posttranslational modification]; other site 1280938004458 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1280938004459 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1280938004460 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1280938004461 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1280938004462 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1280938004463 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 1280938004464 putative substrate binding site [chemical binding]; other site 1280938004465 putative ATP binding site [chemical binding]; other site 1280938004466 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 1280938004467 active site 1280938004468 P-loop; other site 1280938004469 phosphorylation site [posttranslational modification] 1280938004470 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1280938004471 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 1280938004472 active site 1280938004473 P-loop; other site 1280938004474 phosphorylation site [posttranslational modification] 1280938004475 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1280938004476 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1280938004477 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1280938004478 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1280938004479 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1280938004480 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1280938004481 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1280938004482 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 1280938004483 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1280938004484 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1280938004485 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1280938004486 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1280938004487 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 1280938004488 active site 1280938004489 substrate binding site [chemical binding]; other site 1280938004490 cosubstrate binding site; other site 1280938004491 catalytic site [active] 1280938004492 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1280938004493 active site 1280938004494 hexamer interface [polypeptide binding]; other site 1280938004495 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1280938004496 NAD binding site [chemical binding]; other site 1280938004497 substrate binding site [chemical binding]; other site 1280938004498 active site 1280938004499 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1280938004500 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1280938004501 Ligand binding site; other site 1280938004502 Putative Catalytic site; other site 1280938004503 DXD motif; other site 1280938004504 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1280938004505 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 1280938004506 inhibitor-cofactor binding pocket; inhibition site 1280938004507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938004508 catalytic residue [active] 1280938004509 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1280938004510 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1280938004511 Substrate binding site; other site 1280938004512 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1280938004513 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 1280938004514 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1280938004515 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cd00244 1280938004516 active site 1280938004517 Right handed beta helix region; Region: Beta_helix; pfam13229 1280938004518 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1280938004519 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938004520 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938004521 Sel1-like repeats; Region: SEL1; smart00671 1280938004522 PilZ domain; Region: PilZ; pfam07238 1280938004523 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938004524 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1280938004525 active site 1280938004526 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1280938004527 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1280938004528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938004529 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1280938004530 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1280938004531 hypothetical protein; Validated; Region: PRK02101 1280938004532 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1280938004533 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1280938004534 Walker A/P-loop; other site 1280938004535 ATP binding site [chemical binding]; other site 1280938004536 Q-loop/lid; other site 1280938004537 ABC transporter signature motif; other site 1280938004538 Walker B; other site 1280938004539 D-loop; other site 1280938004540 H-loop/switch region; other site 1280938004541 TOBE domain; Region: TOBE_2; pfam08402 1280938004542 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1280938004543 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1280938004544 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1280938004545 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1280938004546 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1280938004547 catalytic triad [active] 1280938004548 putative active site [active] 1280938004549 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1280938004550 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1280938004551 Autotransporter beta-domain; Region: Autotransporter; smart00869 1280938004552 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1280938004553 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 1280938004554 putative [Fe4-S4] binding site [ion binding]; other site 1280938004555 putative molybdopterin cofactor binding site [chemical binding]; other site 1280938004556 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 1280938004557 putative molybdopterin cofactor binding site; other site 1280938004558 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 1280938004559 putative GSH binding site [chemical binding]; other site 1280938004560 catalytic residues [active] 1280938004561 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1280938004562 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1280938004563 heme binding site [chemical binding]; other site 1280938004564 ferroxidase pore; other site 1280938004565 ferroxidase diiron center [ion binding]; other site 1280938004566 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1280938004567 peroxidase; Provisional; Region: PRK15000 1280938004568 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 1280938004569 dimer interface [polypeptide binding]; other site 1280938004570 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1280938004571 catalytic triad [active] 1280938004572 peroxidatic and resolving cysteines [active] 1280938004573 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1280938004574 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1280938004575 dimer interface [polypeptide binding]; other site 1280938004576 catalytic site [active] 1280938004577 putative active site [active] 1280938004578 putative substrate binding site [chemical binding]; other site 1280938004579 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 1280938004580 active site 1280938004581 substrate binding pocket [chemical binding]; other site 1280938004582 dimer interface [polypeptide binding]; other site 1280938004583 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938004584 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938004585 ligand binding site [chemical binding]; other site 1280938004586 argininosuccinate synthase; Provisional; Region: PRK13820 1280938004587 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 1280938004588 ANP binding site [chemical binding]; other site 1280938004589 Substrate Binding Site II [chemical binding]; other site 1280938004590 Substrate Binding Site I [chemical binding]; other site 1280938004591 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938004592 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1280938004593 dimer interface [polypeptide binding]; other site 1280938004594 active site 1280938004595 metal binding site [ion binding]; metal-binding site 1280938004596 glutathione binding site [chemical binding]; other site 1280938004597 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938004598 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938004599 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938004600 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1280938004601 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1280938004602 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 1280938004603 metal-binding site [ion binding] 1280938004604 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1280938004605 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1280938004606 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1280938004607 tetramer interface [polypeptide binding]; other site 1280938004608 active site 1280938004609 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1280938004610 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1280938004611 tetramer interface [polypeptide binding]; other site 1280938004612 active site 1280938004613 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938004614 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 1280938004615 S-adenosylmethionine binding site [chemical binding]; other site 1280938004616 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1280938004617 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1280938004618 minor groove reading motif; other site 1280938004619 helix-hairpin-helix signature motif; other site 1280938004620 substrate binding pocket [chemical binding]; other site 1280938004621 active site 1280938004622 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1280938004623 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1280938004624 Predicted NADH:ubiquinone oxidoreductase, subunit RnfG [Energy production and conversion]; Region: RnfG; COG4659 1280938004625 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 1280938004626 electron transport complex protein RnfC; Provisional; Region: PRK05035 1280938004627 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 1280938004628 SLBB domain; Region: SLBB; pfam10531 1280938004629 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 1280938004630 electron transport complex protein RnfB; Provisional; Region: PRK05113 1280938004631 Putative Fe-S cluster; Region: FeS; pfam04060 1280938004632 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1280938004633 electron transport complex protein RsxA; Provisional; Region: PRK05151 1280938004634 Catalytic domain, repeat 1, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_1; cd09104 1280938004635 putative active site [active] 1280938004636 catalytic site [active] 1280938004637 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1280938004638 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1280938004639 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, yeast PLDs, and similar proteins; Region: PLDc_vPLD1_2_yPLD_like_2; cd09141 1280938004640 putative active site [active] 1280938004641 catalytic site [active] 1280938004642 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1280938004643 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1280938004644 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1280938004645 active site 1280938004646 HIGH motif; other site 1280938004647 KMSKS motif; other site 1280938004648 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1280938004649 tRNA binding surface [nucleotide binding]; other site 1280938004650 anticodon binding site; other site 1280938004651 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 1280938004652 putative tRNA-binding site [nucleotide binding]; other site 1280938004653 dimer interface [polypeptide binding]; other site 1280938004654 antiporter inner membrane protein; Provisional; Region: PRK11670 1280938004655 Domain of unknown function DUF59; Region: DUF59; pfam01883 1280938004656 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 1280938004657 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1280938004658 trimer interface [polypeptide binding]; other site 1280938004659 active site 1280938004660 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938004661 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1280938004662 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1280938004663 homodimer interface [polypeptide binding]; other site 1280938004664 active site 1280938004665 TDP-binding site; other site 1280938004666 acceptor substrate-binding pocket; other site 1280938004667 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1280938004668 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1280938004669 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 1280938004670 DNA binding residues [nucleotide binding] 1280938004671 dimerization interface [polypeptide binding]; other site 1280938004672 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 1280938004673 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1280938004674 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 1280938004675 substrate binding pocket [chemical binding]; other site 1280938004676 membrane-bound complex binding site; other site 1280938004677 hinge residues; other site 1280938004678 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1280938004679 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1280938004680 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1280938004681 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1280938004682 NlpC/P60 family; Region: NLPC_P60; pfam00877 1280938004683 malate dehydrogenase; Provisional; Region: PRK13529 1280938004684 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1280938004685 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1280938004686 NAD(P) binding site [chemical binding]; other site 1280938004687 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 1280938004688 nudix motif; other site 1280938004689 RibD C-terminal domain; Region: RibD_C; cl17279 1280938004690 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1280938004691 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1280938004692 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938004693 benzoate transport; Region: 2A0115; TIGR00895 1280938004694 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 1280938004695 putative substrate translocation pore; other site 1280938004696 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 1280938004697 helicase 45; Provisional; Region: PTZ00424 1280938004698 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 1280938004699 ATP binding site [chemical binding]; other site 1280938004700 Mg++ binding site [ion binding]; other site 1280938004701 motif III; other site 1280938004702 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 1280938004703 nucleotide binding region [chemical binding]; other site 1280938004704 ATP-binding site [chemical binding]; other site 1280938004705 Transmembrane secretion effector; Region: MFS_3; pfam05977 1280938004706 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 1280938004707 putative substrate translocation pore; other site 1280938004708 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 1280938004709 hypothetical protein; Provisional; Region: PRK00304 1280938004710 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1280938004711 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1280938004712 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938004713 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 1280938004714 dimer interface [polypeptide binding]; other site 1280938004715 phosphorylation site [posttranslational modification] 1280938004716 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 1280938004717 ATP binding site [chemical binding]; other site 1280938004718 Mg2+ binding site [ion binding]; other site 1280938004719 G-X-G motif; other site 1280938004720 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938004721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938004722 active site 1280938004723 phosphorylation site [posttranslational modification] 1280938004724 intermolecular recognition site; other site 1280938004725 dimerization interface [polypeptide binding]; other site 1280938004726 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1280938004727 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1280938004728 putative oligomer interface [polypeptide binding]; other site 1280938004729 putative active site [active] 1280938004730 metal binding site [ion binding]; metal-binding site 1280938004731 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1280938004732 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938004733 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938004734 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1280938004735 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 1280938004736 active site 1280938004737 dimer interface [polypeptide binding]; other site 1280938004738 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 1280938004739 Ligand Binding Site [chemical binding]; other site 1280938004740 Molecular Tunnel; other site 1280938004741 MarR family; Region: MarR_2; cl17246 1280938004742 Predicted permeases [General function prediction only]; Region: COG0730 1280938004743 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1280938004744 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1280938004745 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1280938004746 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1280938004747 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1280938004748 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1280938004749 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 1280938004750 dimer interface [polypeptide binding]; other site 1280938004751 active site 1280938004752 Protein of unknown function, DUF480; Region: DUF480; cl01209 1280938004753 malate:quinone oxidoreductase; Validated; Region: PRK05257 1280938004754 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1280938004755 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 1280938004756 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1280938004757 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 1280938004758 dimer interface [polypeptide binding]; other site 1280938004759 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1280938004760 catalytic triad [active] 1280938004761 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1280938004762 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 1280938004763 substrate binding pocket [chemical binding]; other site 1280938004764 membrane-bound complex binding site; other site 1280938004765 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1280938004766 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 1280938004767 dimer interface [polypeptide binding]; other site 1280938004768 conserved gate region; other site 1280938004769 putative PBP binding loops; other site 1280938004770 ABC-ATPase subunit interface; other site 1280938004771 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1280938004772 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1280938004773 Walker A/P-loop; other site 1280938004774 ATP binding site [chemical binding]; other site 1280938004775 Q-loop/lid; other site 1280938004776 ABC transporter signature motif; other site 1280938004777 Walker B; other site 1280938004778 D-loop; other site 1280938004779 H-loop/switch region; other site 1280938004780 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1280938004781 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938004782 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1280938004783 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 1280938004784 substrate binding pocket [chemical binding]; other site 1280938004785 membrane-bound complex binding site; other site 1280938004786 hinge residues; other site 1280938004787 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1280938004788 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1280938004789 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 1280938004790 active site 1280938004791 dimer interface [polypeptide binding]; other site 1280938004792 non-prolyl cis peptide bond; other site 1280938004793 insertion regions; other site 1280938004794 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1280938004795 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 1280938004796 dimer interface [polypeptide binding]; other site 1280938004797 conserved gate region; other site 1280938004798 putative PBP binding loops; other site 1280938004799 ABC-ATPase subunit interface; other site 1280938004800 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1280938004801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938004802 Walker A/P-loop; other site 1280938004803 ATP binding site [chemical binding]; other site 1280938004804 Q-loop/lid; other site 1280938004805 ABC transporter signature motif; other site 1280938004806 Walker B; other site 1280938004807 D-loop; other site 1280938004808 H-loop/switch region; other site 1280938004809 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1280938004810 HopJ type III effector protein; Region: HopJ; pfam08888 1280938004811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1280938004812 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 1280938004813 homooctamer interface [polypeptide binding]; other site 1280938004814 active site 1280938004815 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 1280938004816 homodecamer interface [polypeptide binding]; other site 1280938004817 GTP cyclohydrolase I; Provisional; Region: PLN03044 1280938004818 active site 1280938004819 putative catalytic site residues [active] 1280938004820 zinc binding site [ion binding]; other site 1280938004821 GTP-CH-I/GFRP interaction surface; other site 1280938004822 dihydromonapterin reductase; Provisional; Region: PRK06483 1280938004823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938004824 NAD(P) binding site [chemical binding]; other site 1280938004825 active site 1280938004826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1280938004827 flavodoxin; Provisional; Region: PRK05723 1280938004828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938004829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938004830 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1280938004831 putative dimerization interface [polypeptide binding]; other site 1280938004832 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1280938004833 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1280938004834 aldolase II superfamily protein; Provisional; Region: PRK07044 1280938004835 intersubunit interface [polypeptide binding]; other site 1280938004836 active site 1280938004837 Zn2+ binding site [ion binding]; other site 1280938004838 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938004839 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1280938004840 homodimer interface [polypeptide binding]; other site 1280938004841 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1280938004842 NAD binding site [chemical binding]; other site 1280938004843 active site 1280938004844 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1280938004845 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 1280938004846 substrate binding site [chemical binding]; other site 1280938004847 oxyanion hole (OAH) forming residues; other site 1280938004848 trimer interface [polypeptide binding]; other site 1280938004849 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1280938004850 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938004851 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938004852 SnoaL-like domain; Region: SnoaL_2; pfam12680 1280938004853 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938004854 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938004855 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1280938004856 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1280938004857 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1280938004858 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 1280938004859 DNA binding residues [nucleotide binding] 1280938004860 dimerization interface [polypeptide binding]; other site 1280938004861 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1280938004862 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1280938004863 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1280938004864 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1280938004865 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1280938004866 NAD binding site [chemical binding]; other site 1280938004867 Phe binding site; other site 1280938004868 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1280938004869 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 1280938004870 TPP-binding site [chemical binding]; other site 1280938004871 tetramer interface [polypeptide binding]; other site 1280938004872 heterodimer interface [polypeptide binding]; other site 1280938004873 phosphorylation loop region [posttranslational modification] 1280938004874 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1280938004875 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 1280938004876 alpha subunit interface [polypeptide binding]; other site 1280938004877 TPP binding site [chemical binding]; other site 1280938004878 heterodimer interface [polypeptide binding]; other site 1280938004879 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1280938004880 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1280938004881 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 1280938004882 E3 interaction surface; other site 1280938004883 lipoyl attachment site [posttranslational modification]; other site 1280938004884 e3 binding domain; Region: E3_binding; pfam02817 1280938004885 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1280938004886 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 1280938004887 DNA damage-inducible gene in SOS regulon, dependent on cyclic AMP and H-NS , pqiA [General function prediction only]; Region: COG3141 1280938004888 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1280938004889 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1280938004890 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938004891 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 1280938004892 DNA binding residues [nucleotide binding] 1280938004893 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938004894 FecR protein; Region: FecR; pfam04773 1280938004895 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938004896 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1280938004897 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 1280938004898 N-terminal plug; other site 1280938004899 ligand-binding site [chemical binding]; other site 1280938004900 Heme-binding protein A (HasA); Region: HasA; pfam06438 1280938004901 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1280938004902 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1280938004903 Walker A/P-loop; other site 1280938004904 ATP binding site [chemical binding]; other site 1280938004905 Q-loop/lid; other site 1280938004906 ABC transporter signature motif; other site 1280938004907 Walker B; other site 1280938004908 D-loop; other site 1280938004909 H-loop/switch region; other site 1280938004910 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1280938004911 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938004912 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938004913 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1280938004914 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1280938004915 Predicted membrane protein [Function unknown]; Region: COG3223 1280938004916 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938004917 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938004918 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1280938004919 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1280938004920 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1280938004921 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1280938004922 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1280938004923 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1280938004924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938004925 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 1280938004926 putative dimerization interface [polypeptide binding]; other site 1280938004927 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1280938004928 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 1280938004929 FAD binding pocket [chemical binding]; other site 1280938004930 FAD binding motif [chemical binding]; other site 1280938004931 phosphate binding motif [ion binding]; other site 1280938004932 beta-alpha-beta structure motif; other site 1280938004933 NAD binding pocket [chemical binding]; other site 1280938004934 NosL; Region: NosL; cl01769 1280938004935 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1280938004936 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1280938004937 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1280938004938 Walker A/P-loop; other site 1280938004939 ATP binding site [chemical binding]; other site 1280938004940 Q-loop/lid; other site 1280938004941 ABC transporter signature motif; other site 1280938004942 Walker B; other site 1280938004943 D-loop; other site 1280938004944 H-loop/switch region; other site 1280938004945 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1280938004946 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1280938004947 nitrous-oxide reductase; Validated; Region: PRK02888 1280938004948 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1280938004949 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1280938004950 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1280938004951 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1280938004952 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 1280938004953 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938004954 active site 1280938004955 metal binding site [ion binding]; metal-binding site 1280938004956 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1280938004957 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1280938004958 homodimer interaction site [polypeptide binding]; other site 1280938004959 cofactor binding site; other site 1280938004960 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 1280938004961 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1280938004962 NADP binding site [chemical binding]; other site 1280938004963 active site 1280938004964 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1280938004965 Arc-like DNA binding domain; Region: Arc; pfam03869 1280938004966 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1280938004967 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1280938004968 Walker A/P-loop; other site 1280938004969 ATP binding site [chemical binding]; other site 1280938004970 Q-loop/lid; other site 1280938004971 ABC transporter signature motif; other site 1280938004972 Walker B; other site 1280938004973 D-loop; other site 1280938004974 H-loop/switch region; other site 1280938004975 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1280938004976 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1280938004977 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 1280938004978 dimer interface [polypeptide binding]; other site 1280938004979 conserved gate region; other site 1280938004980 ABC-ATPase subunit interface; other site 1280938004981 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1280938004982 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938004983 DNA-binding site [nucleotide binding]; DNA binding site 1280938004984 UTRA domain; Region: UTRA; pfam07702 1280938004985 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1280938004986 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 1280938004987 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 1280938004988 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 1280938004989 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1280938004990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938004991 Walker A/P-loop; other site 1280938004992 ATP binding site [chemical binding]; other site 1280938004993 Q-loop/lid; other site 1280938004994 ABC transporter signature motif; other site 1280938004995 Walker B; other site 1280938004996 D-loop; other site 1280938004997 H-loop/switch region; other site 1280938004998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1280938004999 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1280938005000 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938005001 Walker A/P-loop; other site 1280938005002 ATP binding site [chemical binding]; other site 1280938005003 Q-loop/lid; other site 1280938005004 ABC transporter signature motif; other site 1280938005005 Walker B; other site 1280938005006 D-loop; other site 1280938005007 H-loop/switch region; other site 1280938005008 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1280938005009 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 1280938005010 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 1280938005011 active site 1280938005012 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 1280938005013 Guanylate kinase; Region: Guanylate_kin; pfam00625 1280938005014 active site 1280938005015 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1280938005016 putative hydrolase; Provisional; Region: PRK02113 1280938005017 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1280938005018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938005019 Coenzyme A binding pocket [chemical binding]; other site 1280938005020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1280938005021 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938005022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1280938005023 RecX family; Region: RecX; cl00936 1280938005024 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 1280938005025 putative FMN binding site [chemical binding]; other site 1280938005026 NADPH bind site [chemical binding]; other site 1280938005027 HEXXH motif domain; Region: mod_HExxH; TIGR04267 1280938005028 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1280938005029 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1280938005030 multimer interface [polypeptide binding]; other site 1280938005031 active site 1280938005032 catalytic triad [active] 1280938005033 dimer interface [polypeptide binding]; other site 1280938005034 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1280938005035 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 1280938005036 Walker A motif; other site 1280938005037 ATP binding site [chemical binding]; other site 1280938005038 Walker B motif; other site 1280938005039 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1280938005040 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 1280938005041 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1280938005042 ligand binding site [chemical binding]; other site 1280938005043 regulator interaction site; other site 1280938005044 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1280938005045 ANTAR domain; Region: ANTAR; pfam03861 1280938005046 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1280938005047 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 1280938005048 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1280938005049 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938005050 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938005051 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1280938005052 EamA-like transporter family; Region: EamA; cl17759 1280938005053 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 1280938005054 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1280938005055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938005056 catalytic residue [active] 1280938005057 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1280938005058 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938005059 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 1280938005060 putative substrate translocation pore; other site 1280938005061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3222 1280938005062 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1280938005063 Flagellar regulator YcgR; Region: YcgR; pfam07317 1280938005064 PilZ domain; Region: PilZ; pfam07238 1280938005065 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 1280938005066 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1280938005067 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1280938005068 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1280938005069 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1280938005070 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1280938005071 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938005072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938005073 active site 1280938005074 phosphorylation site [posttranslational modification] 1280938005075 intermolecular recognition site; other site 1280938005076 dimerization interface [polypeptide binding]; other site 1280938005077 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1280938005078 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1280938005079 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 1280938005080 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 1280938005081 anti sigma factor interaction site; other site 1280938005082 regulatory phosphorylation site [posttranslational modification]; other site 1280938005083 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938005084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938005085 active site 1280938005086 phosphorylation site [posttranslational modification] 1280938005087 intermolecular recognition site; other site 1280938005088 dimerization interface [polypeptide binding]; other site 1280938005089 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1280938005090 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1280938005091 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1280938005092 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 1280938005093 putative binding surface; other site 1280938005094 active site 1280938005095 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1280938005096 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 1280938005097 ATP binding site [chemical binding]; other site 1280938005098 putative Mg++ binding site [ion binding]; other site 1280938005099 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 1280938005100 nucleotide binding region [chemical binding]; other site 1280938005101 ATP-binding site [chemical binding]; other site 1280938005102 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1280938005103 HRDC domain; Region: HRDC; pfam00570 1280938005104 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938005105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938005106 metal binding site [ion binding]; metal-binding site 1280938005107 active site 1280938005108 I-site; other site 1280938005109 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 1280938005110 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1280938005111 MarR family; Region: MarR_2; pfam12802 1280938005112 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1280938005113 FimV N-terminal domain; Region: FimV_core; TIGR03505 1280938005114 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1280938005115 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1280938005116 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1280938005117 active site 1280938005118 nucleophile elbow; other site 1280938005119 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1280938005120 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1280938005121 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1280938005122 Surface antigen; Region: Bac_surface_Ag; pfam01103 1280938005123 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1280938005124 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1280938005125 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1280938005126 NADP binding site [chemical binding]; other site 1280938005127 homopentamer interface [polypeptide binding]; other site 1280938005128 substrate binding site [chemical binding]; other site 1280938005129 active site 1280938005130 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1280938005131 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 1280938005132 S-adenosylmethionine binding site [chemical binding]; other site 1280938005133 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1280938005134 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 1280938005135 dimer interface [polypeptide binding]; other site 1280938005136 active site 1280938005137 CoA binding pocket [chemical binding]; other site 1280938005138 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1280938005139 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1280938005140 Cytochrome P450; Region: p450; cl12078 1280938005141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938005142 short chain dehydrogenase; Provisional; Region: PRK06914 1280938005143 NAD(P) binding site [chemical binding]; other site 1280938005144 active site 1280938005145 Condensation domain; Region: Condensation; pfam00668 1280938005146 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1280938005147 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1280938005148 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1280938005149 Condensation domain; Region: Condensation; pfam00668 1280938005150 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938005151 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938005152 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938005153 acyl-activating enzyme (AAE) consensus motif; other site 1280938005154 AMP binding site [chemical binding]; other site 1280938005155 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938005156 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1280938005157 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938005158 acyl-activating enzyme (AAE) consensus motif; other site 1280938005159 AMP binding site [chemical binding]; other site 1280938005160 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938005161 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1280938005162 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1280938005163 oligomer interface [polypeptide binding]; other site 1280938005164 active site residues [active] 1280938005165 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1280938005166 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1280938005167 short chain dehydrogenase; Validated; Region: PRK05855 1280938005168 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938005169 classical (c) SDRs; Region: SDR_c; cd05233 1280938005170 NAD(P) binding site [chemical binding]; other site 1280938005171 active site 1280938005172 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; cd01066 1280938005173 active site 1280938005174 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 1280938005175 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1280938005176 DNA binding residues [nucleotide binding] 1280938005177 putative dimer interface [polypeptide binding]; other site 1280938005178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938005179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938005180 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 1280938005181 putative substrate binding pocket [chemical binding]; other site 1280938005182 putative dimerization interface [polypeptide binding]; other site 1280938005183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1280938005184 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1280938005185 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1280938005186 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1280938005187 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1280938005188 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1280938005189 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1280938005190 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 1280938005191 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1280938005192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938005193 Walker A/P-loop; other site 1280938005194 ATP binding site [chemical binding]; other site 1280938005195 Q-loop/lid; other site 1280938005196 ABC transporter signature motif; other site 1280938005197 Walker B; other site 1280938005198 D-loop; other site 1280938005199 H-loop/switch region; other site 1280938005200 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1280938005201 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 1280938005202 substrate binding pocket [chemical binding]; other site 1280938005203 membrane-bound complex binding site; other site 1280938005204 hinge residues; other site 1280938005205 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1280938005206 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1280938005207 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1280938005208 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1280938005209 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1280938005210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938005211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938005212 metal binding site [ion binding]; metal-binding site 1280938005213 active site 1280938005214 I-site; other site 1280938005215 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 1280938005216 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1280938005217 Sulfatase; Region: Sulfatase; pfam00884 1280938005218 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 1280938005219 Ligand Binding Site [chemical binding]; other site 1280938005220 ATP-dependent helicase HepA; Validated; Region: PRK04914 1280938005221 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 1280938005222 ATP binding site [chemical binding]; other site 1280938005223 putative Mg++ binding site [ion binding]; other site 1280938005224 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 1280938005225 nucleotide binding region [chemical binding]; other site 1280938005226 ATP-binding site [chemical binding]; other site 1280938005227 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 1280938005228 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1280938005229 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1280938005230 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1280938005231 HlyD family secretion protein; Region: HlyD; pfam00529 1280938005232 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938005233 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938005234 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1280938005235 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1280938005236 (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 1280938005237 dimer interaction site [polypeptide binding]; other site 1280938005238 substrate-binding tunnel; other site 1280938005239 active site 1280938005240 catalytic site [active] 1280938005241 substrate binding site [chemical binding]; other site 1280938005242 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1280938005243 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938005244 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938005245 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1280938005246 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1280938005247 acyl-activating enzyme (AAE) consensus motif; other site 1280938005248 putative AMP binding site [chemical binding]; other site 1280938005249 putative active site [active] 1280938005250 putative CoA binding site [chemical binding]; other site 1280938005251 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1280938005252 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1280938005253 acyl-activating enzyme (AAE) consensus motif; other site 1280938005254 putative AMP binding site [chemical binding]; other site 1280938005255 putative active site [active] 1280938005256 putative CoA binding site [chemical binding]; other site 1280938005257 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1280938005258 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 1280938005259 ATP binding site [chemical binding]; other site 1280938005260 putative Mg++ binding site [ion binding]; other site 1280938005261 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 1280938005262 nucleotide binding region [chemical binding]; other site 1280938005263 ATP-binding site [chemical binding]; other site 1280938005264 Helicase associated domain (HA2); Region: HA2; pfam04408 1280938005265 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1280938005266 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1280938005267 alkaline phosphatase; Provisional; Region: PRK10518 1280938005268 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1280938005269 active site 1280938005270 dimer interface [polypeptide binding]; other site 1280938005271 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 1280938005272 HIT family signature motif; other site 1280938005273 catalytic residue [active] 1280938005274 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938005275 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938005276 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938005277 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1280938005278 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1280938005279 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1280938005280 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1280938005281 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1280938005282 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 1280938005283 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938005284 catalytic triad [active] 1280938005285 conserved cis-peptide bond; other site 1280938005286 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1280938005287 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1280938005288 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1280938005289 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1280938005290 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 1280938005291 dimer interface [polypeptide binding]; other site 1280938005292 active site 1280938005293 CoA binding pocket [chemical binding]; other site 1280938005294 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1280938005295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938005296 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 1280938005297 DNA binding residues [nucleotide binding] 1280938005298 Putative zinc-finger; Region: zf-HC2; pfam13490 1280938005299 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1280938005300 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1280938005301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1280938005302 Predicted membrane protein [Function unknown]; Region: COG2259 1280938005303 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1280938005304 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1280938005305 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1280938005306 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1280938005307 short chain dehydrogenase; Provisional; Region: PRK05650 1280938005308 classical (c) SDRs; Region: SDR_c; cd05233 1280938005309 NAD(P) binding site [chemical binding]; other site 1280938005310 active site 1280938005311 Uncharacterized conserved protein [Function unknown]; Region: COG1742 1280938005312 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1280938005313 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 1280938005314 ATP binding site [chemical binding]; other site 1280938005315 putative Mg++ binding site [ion binding]; other site 1280938005316 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 1280938005317 nucleotide binding region [chemical binding]; other site 1280938005318 ATP-binding site [chemical binding]; other site 1280938005319 DEAD/H associated; Region: DEAD_assoc; pfam08494 1280938005320 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1280938005321 Na binding site [ion binding]; other site 1280938005322 PAS fold; Region: PAS_7; pfam12860 1280938005323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938005324 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 1280938005325 dimer interface [polypeptide binding]; other site 1280938005326 phosphorylation site [posttranslational modification] 1280938005327 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 1280938005328 ATP binding site [chemical binding]; other site 1280938005329 Mg2+ binding site [ion binding]; other site 1280938005330 G-X-G motif; other site 1280938005331 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938005332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938005333 active site 1280938005334 phosphorylation site [posttranslational modification] 1280938005335 intermolecular recognition site; other site 1280938005336 dimerization interface [polypeptide binding]; other site 1280938005337 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1280938005338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1280938005339 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938005340 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938005341 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938005342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938005343 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1280938005344 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 1280938005345 N-terminal plug; other site 1280938005346 ligand-binding site [chemical binding]; other site 1280938005347 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 1280938005348 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938005349 putative substrate translocation pore; other site 1280938005350 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1280938005351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1280938005352 putative acyl-acceptor binding pocket; other site 1280938005353 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 1280938005354 DNA-binding site [nucleotide binding]; DNA binding site 1280938005355 RNA-binding motif; other site 1280938005356 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1280938005357 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1280938005358 Sodium Bile acid symporter family; Region: SBF; pfam01758 1280938005359 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1280938005360 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1280938005361 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1280938005362 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1280938005363 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1280938005364 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1280938005365 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 1280938005366 substrate binding pocket [chemical binding]; other site 1280938005367 membrane-bound complex binding site; other site 1280938005368 hinge residues; other site 1280938005369 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 1280938005370 non-specific DNA binding site [nucleotide binding]; other site 1280938005371 salt bridge; other site 1280938005372 sequence-specific DNA binding site [nucleotide binding]; other site 1280938005373 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 1280938005374 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 1280938005375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938005376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938005377 metal binding site [ion binding]; metal-binding site 1280938005378 active site 1280938005379 I-site; other site 1280938005380 carboxy-terminal protease; Provisional; Region: PRK11186 1280938005381 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1280938005382 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 1280938005383 protein binding site [polypeptide binding]; other site 1280938005384 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1280938005385 Catalytic dyad [active] 1280938005386 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1280938005387 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1280938005388 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1280938005389 NAD(P) binding site [chemical binding]; other site 1280938005390 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1280938005391 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1280938005392 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1280938005393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938005394 Walker A/P-loop; other site 1280938005395 ATP binding site [chemical binding]; other site 1280938005396 Q-loop/lid; other site 1280938005397 ABC transporter signature motif; other site 1280938005398 Walker B; other site 1280938005399 D-loop; other site 1280938005400 H-loop/switch region; other site 1280938005401 TOBE domain; Region: TOBE_2; pfam08402 1280938005402 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1280938005403 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 1280938005404 dimer interface [polypeptide binding]; other site 1280938005405 conserved gate region; other site 1280938005406 putative PBP binding loops; other site 1280938005407 ABC-ATPase subunit interface; other site 1280938005408 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1280938005409 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 1280938005410 dimer interface [polypeptide binding]; other site 1280938005411 conserved gate region; other site 1280938005412 putative PBP binding loops; other site 1280938005413 ABC-ATPase subunit interface; other site 1280938005414 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1280938005415 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938005416 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1280938005417 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938005418 DNA-binding site [nucleotide binding]; DNA binding site 1280938005419 transcriptional regulator protein; Region: phnR; TIGR03337 1280938005420 UTRA domain; Region: UTRA; pfam07702 1280938005421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1280938005422 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1280938005423 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1280938005424 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1280938005425 active site 1280938005426 metal binding site [ion binding]; metal-binding site 1280938005427 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1280938005428 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1280938005429 active site 1280938005430 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1280938005431 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1280938005432 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 1280938005433 Switch I; other site 1280938005434 Switch II; other site 1280938005435 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1280938005436 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1280938005437 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1280938005438 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1280938005439 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1280938005440 putative acyl-acceptor binding pocket; other site 1280938005441 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1280938005442 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1280938005443 active site 1280938005444 nucleophile elbow; other site 1280938005445 Pirin-related protein [General function prediction only]; Region: COG1741 1280938005446 Pirin; Region: Pirin; pfam02678 1280938005447 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1280938005448 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1280938005449 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938005450 Predicted membrane protein [Function unknown]; Region: COG3205 1280938005451 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1280938005452 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1280938005453 Predicted membrane protein [Function unknown]; Region: COG3162 1280938005454 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1280938005455 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1280938005456 Na binding site [ion binding]; other site 1280938005457 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1280938005458 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 1280938005459 ligand binding site [chemical binding]; other site 1280938005460 flexible hinge region; other site 1280938005461 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 1280938005462 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1280938005463 metal binding triad; other site 1280938005464 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1280938005465 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1280938005466 active site 1280938005467 catalytic site [active] 1280938005468 substrate binding site [chemical binding]; other site 1280938005469 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 1280938005470 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1280938005471 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1280938005472 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1280938005473 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1280938005474 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938005475 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1280938005476 Walker A/P-loop; other site 1280938005477 ATP binding site [chemical binding]; other site 1280938005478 Q-loop/lid; other site 1280938005479 ABC transporter signature motif; other site 1280938005480 Walker B; other site 1280938005481 D-loop; other site 1280938005482 H-loop/switch region; other site 1280938005483 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1280938005484 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 1280938005485 substrate binding site [chemical binding]; other site 1280938005486 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938005487 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1280938005488 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1280938005489 catalytic site [active] 1280938005490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938005491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938005492 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 1280938005493 dimerization interface [polypeptide binding]; other site 1280938005494 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1280938005495 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938005496 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 1280938005497 catalytic residues [active] 1280938005498 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 1280938005499 lipoyl attachment site [posttranslational modification]; other site 1280938005500 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1280938005501 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1280938005502 NADP binding site [chemical binding]; other site 1280938005503 glutathionine S-transferase; Provisional; Region: PRK10542 1280938005504 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1280938005505 C-terminal domain interface [polypeptide binding]; other site 1280938005506 GSH binding site (G-site) [chemical binding]; other site 1280938005507 dimer interface [polypeptide binding]; other site 1280938005508 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1280938005509 dimer interface [polypeptide binding]; other site 1280938005510 N-terminal domain interface [polypeptide binding]; other site 1280938005511 substrate binding pocket (H-site) [chemical binding]; other site 1280938005512 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1280938005513 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938005514 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1280938005515 transcriptional regulator; Provisional; Region: PRK10632 1280938005516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938005517 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 1280938005518 putative effector binding pocket; other site 1280938005519 putative dimerization interface [polypeptide binding]; other site 1280938005520 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1280938005521 EamA-like transporter family; Region: EamA; pfam00892 1280938005522 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 1280938005523 dimer interface [polypeptide binding]; other site 1280938005524 putative tRNA-binding site [nucleotide binding]; other site 1280938005525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938005526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938005527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938005528 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1280938005529 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1280938005530 putative active site [active] 1280938005531 putative metal binding site [ion binding]; other site 1280938005532 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938005533 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 1280938005534 MASE2 domain; Region: MASE2; pfam05230 1280938005535 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1280938005536 cyclase homology domain; Region: CHD; cd07302 1280938005537 nucleotidyl binding site; other site 1280938005538 metal binding site [ion binding]; metal-binding site 1280938005539 dimer interface [polypeptide binding]; other site 1280938005540 Predicted membrane protein [Function unknown]; Region: COG4323 1280938005541 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938005542 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938005543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938005544 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1280938005545 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1280938005546 mce related protein; Region: MCE; pfam02470 1280938005547 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1280938005548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938005549 Walker A/P-loop; other site 1280938005550 ATP binding site [chemical binding]; other site 1280938005551 Q-loop/lid; other site 1280938005552 ABC transporter signature motif; other site 1280938005553 Walker B; other site 1280938005554 D-loop; other site 1280938005555 H-loop/switch region; other site 1280938005556 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1280938005557 Permease; Region: Permease; pfam02405 1280938005558 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1280938005559 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1280938005560 Flagellin N-methylase; Region: FliB; pfam03692 1280938005561 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 1280938005562 putative FMN binding site [chemical binding]; other site 1280938005563 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938005564 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 1280938005565 dimerization interface [polypeptide binding]; other site 1280938005566 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 1280938005567 ATP binding site [chemical binding]; other site 1280938005568 Mg2+ binding site [ion binding]; other site 1280938005569 G-X-G motif; other site 1280938005570 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; COG3678 1280938005571 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938005572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938005573 active site 1280938005574 phosphorylation site [posttranslational modification] 1280938005575 intermolecular recognition site; other site 1280938005576 dimerization interface [polypeptide binding]; other site 1280938005577 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 1280938005578 DNA binding site [nucleotide binding] 1280938005579 YciI-like protein; Reviewed; Region: PRK11370 1280938005580 intracellular septation protein A; Reviewed; Region: PRK00259 1280938005581 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1280938005582 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1280938005583 active site 1280938005584 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1280938005585 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1280938005586 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1280938005587 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1280938005588 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1280938005589 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1280938005590 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1280938005591 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1280938005592 phosphogluconate dehydratase; Validated; Region: PRK09054 1280938005593 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1280938005594 glucokinase, proteobacterial type; Region: glk; TIGR00749 1280938005595 glucokinase; Provisional; Region: glk; PRK00292 1280938005596 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938005597 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938005598 active site 1280938005599 phosphorylation site [posttranslational modification] 1280938005600 intermolecular recognition site; other site 1280938005601 dimerization interface [polypeptide binding]; other site 1280938005602 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 1280938005603 DNA binding site [nucleotide binding] 1280938005604 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1280938005605 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 1280938005606 ATP binding site [chemical binding]; other site 1280938005607 Mg2+ binding site [ion binding]; other site 1280938005608 G-X-G motif; other site 1280938005609 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1280938005610 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1280938005611 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 1280938005612 dimer interface [polypeptide binding]; other site 1280938005613 conserved gate region; other site 1280938005614 putative PBP binding loops; other site 1280938005615 ABC-ATPase subunit interface; other site 1280938005616 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1280938005617 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 1280938005618 dimer interface [polypeptide binding]; other site 1280938005619 conserved gate region; other site 1280938005620 putative PBP binding loops; other site 1280938005621 ABC-ATPase subunit interface; other site 1280938005622 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1280938005623 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1280938005624 Walker A/P-loop; other site 1280938005625 ATP binding site [chemical binding]; other site 1280938005626 Q-loop/lid; other site 1280938005627 ABC transporter signature motif; other site 1280938005628 Walker B; other site 1280938005629 D-loop; other site 1280938005630 H-loop/switch region; other site 1280938005631 TOBE domain; Region: TOBE; pfam03459 1280938005632 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1280938005633 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1280938005634 active site 1280938005635 phosphate binding residues; other site 1280938005636 catalytic residues [active] 1280938005637 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1280938005638 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1280938005639 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 1280938005640 putative active site [active] 1280938005641 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1280938005642 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1280938005643 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1280938005644 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1280938005645 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 1280938005646 putative active site [active] 1280938005647 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1280938005648 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1280938005649 active site 1280938005650 intersubunit interface [polypeptide binding]; other site 1280938005651 catalytic residue [active] 1280938005652 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_23; cd04682 1280938005653 nudix motif; other site 1280938005654 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1280938005655 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 1280938005656 RNA binding surface [nucleotide binding]; other site 1280938005657 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1280938005658 probable active site [active] 1280938005659 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938005660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938005661 metal binding site [ion binding]; metal-binding site 1280938005662 active site 1280938005663 I-site; other site 1280938005664 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 1280938005665 agmatinase; Region: agmatinase; TIGR01230 1280938005666 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1280938005667 putative active site [active] 1280938005668 putative metal binding site [ion binding]; other site 1280938005669 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1280938005670 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1280938005671 Bacterial transcriptional regulator; Region: IclR; pfam01614 1280938005672 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1280938005673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938005674 NAD(P) binding site [chemical binding]; other site 1280938005675 active site 1280938005676 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1280938005677 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 1280938005678 motif II; other site 1280938005679 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1280938005680 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 1280938005681 S-adenosylmethionine binding site [chemical binding]; other site 1280938005682 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1280938005683 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 1280938005684 active site 1280938005685 putative substrate binding pocket [chemical binding]; other site 1280938005686 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1280938005687 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1280938005688 DNA gyrase subunit A; Validated; Region: PRK05560 1280938005689 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 1280938005690 CAP-like domain; other site 1280938005691 active site 1280938005692 primary dimer interface [polypeptide binding]; other site 1280938005693 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1280938005694 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1280938005695 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1280938005696 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1280938005697 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1280938005698 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1280938005699 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 1280938005700 homodimer interface [polypeptide binding]; other site 1280938005701 substrate-cofactor binding pocket; other site 1280938005702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938005703 catalytic residue [active] 1280938005704 Chorismate mutase type II; Region: CM_2; cl00693 1280938005705 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1280938005706 Prephenate dehydratase; Region: PDT; pfam00800 1280938005707 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 1280938005708 putative L-Phe binding site [chemical binding]; other site 1280938005709 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1280938005710 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 1280938005711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938005712 homodimer interface [polypeptide binding]; other site 1280938005713 catalytic residue [active] 1280938005714 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1280938005715 prephenate dehydrogenase; Validated; Region: PRK08507 1280938005716 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 1280938005717 hinge; other site 1280938005718 active site 1280938005719 cytidylate kinase; Provisional; Region: cmk; PRK00023 1280938005720 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 1280938005721 CMP-binding site; other site 1280938005722 The sites determining sugar specificity; other site 1280938005723 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1280938005724 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 1280938005725 RNA binding site [nucleotide binding]; other site 1280938005726 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 1280938005727 RNA binding site [nucleotide binding]; other site 1280938005728 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 1280938005729 RNA binding site [nucleotide binding]; other site 1280938005730 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 1280938005731 RNA binding site [nucleotide binding]; other site 1280938005732 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 1280938005733 RNA binding site [nucleotide binding]; other site 1280938005734 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 1280938005735 RNA binding site [nucleotide binding]; other site 1280938005736 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 1280938005737 IHF dimer interface [polypeptide binding]; other site 1280938005738 IHF - DNA interface [nucleotide binding]; other site 1280938005739 Chain length determinant protein; Region: Wzz; pfam02706 1280938005740 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1280938005741 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1280938005742 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1280938005743 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 1280938005744 active site 1280938005745 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1280938005746 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1280938005747 NAD(P) binding site [chemical binding]; other site 1280938005748 homodimer interface [polypeptide binding]; other site 1280938005749 substrate binding site [chemical binding]; other site 1280938005750 active site 1280938005751 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1280938005752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938005753 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1280938005754 NAD(P) binding site [chemical binding]; other site 1280938005755 active site 1280938005756 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1280938005757 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1280938005758 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 1280938005759 active site 1280938005760 homodimer interface [polypeptide binding]; other site 1280938005761 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1280938005762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938005763 NAD(P) binding site [chemical binding]; other site 1280938005764 active site 1280938005765 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 1280938005766 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1280938005767 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1280938005768 NAD(P) binding site [chemical binding]; other site 1280938005769 homodimer interface [polypeptide binding]; other site 1280938005770 substrate binding site [chemical binding]; other site 1280938005771 active site 1280938005772 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1280938005773 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1280938005774 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 1280938005775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938005776 homodimer interface [polypeptide binding]; other site 1280938005777 catalytic residue [active] 1280938005778 excinuclease ABC subunit B; Provisional; Region: PRK05298 1280938005779 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 1280938005780 ATP binding site [chemical binding]; other site 1280938005781 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 1280938005782 nucleotide binding region [chemical binding]; other site 1280938005783 ATP-binding site [chemical binding]; other site 1280938005784 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1280938005785 UvrB/uvrC motif; Region: UVR; pfam02151 1280938005786 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1280938005787 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 1280938005788 putative substrate translocation pore; other site 1280938005789 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1280938005790 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938005791 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938005792 LysR family transcriptional regulator; Provisional; Region: PRK14997 1280938005793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938005794 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 1280938005795 putative effector binding pocket; other site 1280938005796 dimerization interface [polypeptide binding]; other site 1280938005797 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1280938005798 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1280938005799 HIGH motif; other site 1280938005800 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1280938005801 active site 1280938005802 KMSKS motif; other site 1280938005803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938005804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938005805 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1280938005806 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938005807 Entner-Doudoroff aldolase; Region: eda; TIGR01182 1280938005808 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1280938005809 active site 1280938005810 intersubunit interface [polypeptide binding]; other site 1280938005811 catalytic residue [active] 1280938005812 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 1280938005813 active site 1280938005814 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1280938005815 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 1280938005816 FMN binding site [chemical binding]; other site 1280938005817 active site 1280938005818 catalytic residues [active] 1280938005819 substrate binding site [chemical binding]; other site 1280938005820 short chain dehydrogenase; Provisional; Region: PRK06123 1280938005821 classical (c) SDRs; Region: SDR_c; cd05233 1280938005822 NAD(P) binding site [chemical binding]; other site 1280938005823 active site 1280938005824 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 1280938005825 dimer interface [polypeptide binding]; other site 1280938005826 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938005827 ligand binding site [chemical binding]; other site 1280938005828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938005829 Coenzyme A binding pocket [chemical binding]; other site 1280938005830 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1280938005831 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 1280938005832 putative dimer interface [polypeptide binding]; other site 1280938005833 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 1280938005834 active site 1280938005835 catalytic triad [active] 1280938005836 oxyanion hole [active] 1280938005837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938005838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938005839 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_10; cd08480 1280938005840 putative effector binding pocket; other site 1280938005841 putative dimerization interface [polypeptide binding]; other site 1280938005842 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 1280938005843 homotrimer interaction site [polypeptide binding]; other site 1280938005844 putative active site [active] 1280938005845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938005846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938005847 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 1280938005848 dimerization interface [polypeptide binding]; other site 1280938005849 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1280938005850 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1280938005851 substrate binding site [chemical binding]; other site 1280938005852 ligand binding site [chemical binding]; other site 1280938005853 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1280938005854 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 1280938005855 substrate binding site [chemical binding]; other site 1280938005856 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938005857 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 1280938005858 S-adenosylmethionine binding site [chemical binding]; other site 1280938005859 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1280938005860 tartrate dehydrogenase; Region: TTC; TIGR02089 1280938005861 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1280938005862 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1280938005863 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1280938005864 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1280938005865 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1280938005866 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938005867 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1280938005868 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1280938005869 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1280938005870 dimerization interface 3.5A [polypeptide binding]; other site 1280938005871 active site 1280938005872 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 1280938005873 active site 1280938005874 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1280938005875 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1280938005876 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1280938005877 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1280938005878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1280938005879 Sporulation related domain; Region: SPOR; pfam05036 1280938005880 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1280938005881 Colicin V production protein; Region: Colicin_V; cl00567 1280938005882 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1280938005883 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 1280938005884 active site 1280938005885 tetramer interface [polypeptide binding]; other site 1280938005886 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938005887 active site 1280938005888 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1280938005889 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 1280938005890 homodimer interface [polypeptide binding]; other site 1280938005891 substrate-cofactor binding pocket; other site 1280938005892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938005893 catalytic residue [active] 1280938005894 oxidoreductase; Validated; Region: PRK05717 1280938005895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938005896 NAD(P) binding site [chemical binding]; other site 1280938005897 active site 1280938005898 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1280938005899 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938005900 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938005901 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938005902 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938005903 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1280938005904 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1280938005905 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 1280938005906 Walker A motif; other site 1280938005907 ATP binding site [chemical binding]; other site 1280938005908 Walker B motif; other site 1280938005909 type II secretion system protein F; Region: GspF; TIGR02120 1280938005910 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938005911 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938005912 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1280938005913 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1280938005914 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1280938005915 type II secretion system protein I; Region: gspI; TIGR01707 1280938005916 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1280938005917 type II secretion system protein J; Region: gspJ; TIGR01711 1280938005918 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1280938005919 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 1280938005920 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 1280938005921 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1280938005922 GspL periplasmic domain; Region: GspL_C; pfam12693 1280938005923 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 1280938005924 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938005925 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938005926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938005927 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1280938005928 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1280938005929 active site 1280938005930 catalytic triad [active] 1280938005931 dimer interface [polypeptide binding]; other site 1280938005932 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938005933 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 1280938005934 active site 1280938005935 FMN binding site [chemical binding]; other site 1280938005936 2,4-decadienoyl-CoA binding site; other site 1280938005937 catalytic residue [active] 1280938005938 4Fe-4S cluster binding site [ion binding]; other site 1280938005939 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1280938005940 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 1280938005941 catalytic residue [active] 1280938005942 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 1280938005943 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1280938005944 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1280938005945 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 1280938005946 active site 1280938005947 metal binding site [ion binding]; metal-binding site 1280938005948 Rhomboid family; Region: Rhomboid; pfam01694 1280938005949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 1280938005950 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1280938005951 aminopeptidase N; Provisional; Region: pepN; PRK14015 1280938005952 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1280938005953 active site 1280938005954 Zn binding site [ion binding]; other site 1280938005955 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1280938005956 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1280938005957 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1280938005958 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1280938005959 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938005960 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 1280938005961 dimer interface [polypeptide binding]; other site 1280938005962 phosphorylation site [posttranslational modification] 1280938005963 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 1280938005964 ATP binding site [chemical binding]; other site 1280938005965 Mg2+ binding site [ion binding]; other site 1280938005966 G-X-G motif; other site 1280938005967 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938005968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938005969 active site 1280938005970 phosphorylation site [posttranslational modification] 1280938005971 intermolecular recognition site; other site 1280938005972 dimerization interface [polypeptide binding]; other site 1280938005973 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 1280938005974 DNA binding site [nucleotide binding] 1280938005975 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1280938005976 catalytic triad [active] 1280938005977 putative active site [active] 1280938005978 Autotransporter beta-domain; Region: Autotransporter; smart00869 1280938005979 chlorophyllase; Region: PLN00021 1280938005980 Oxygen tolerance; Region: BatD; pfam13584 1280938005981 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1280938005982 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 1280938005983 TPR repeat; Region: TPR_11; pfam13414 1280938005984 binding surface 1280938005985 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1280938005986 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 1280938005987 metal ion-dependent adhesion site (MIDAS); other site 1280938005988 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1280938005989 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1280938005990 Protein of unknown function DUF58; Region: DUF58; pfam01882 1280938005991 MoxR-like ATPases [General function prediction only]; Region: COG0714 1280938005992 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 1280938005993 Walker A motif; other site 1280938005994 ATP binding site [chemical binding]; other site 1280938005995 Walker B motif; other site 1280938005996 arginine finger; other site 1280938005997 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1280938005998 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1280938005999 Uncharacterized conserved protein [Function unknown]; Region: COG3868 1280938006000 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 1280938006001 putative active site [active] 1280938006002 Tetratricopeptide repeat; Region: TPR_15; pfam13429 1280938006003 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1280938006004 GAF domain; Region: GAF_3; pfam13492 1280938006005 HEAT repeats; Region: HEAT_2; pfam13646 1280938006006 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_3; cd03813 1280938006007 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938006008 Predicted membrane protein [Function unknown]; Region: COG4267 1280938006009 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1280938006010 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 1280938006011 non-specific DNA binding site [nucleotide binding]; other site 1280938006012 salt bridge; other site 1280938006013 sequence-specific DNA binding site [nucleotide binding]; other site 1280938006014 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 1280938006015 non-specific DNA binding site [nucleotide binding]; other site 1280938006016 salt bridge; other site 1280938006017 sequence-specific DNA binding site [nucleotide binding]; other site 1280938006018 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1280938006019 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 1280938006020 putative active site [active] 1280938006021 Zn binding site [ion binding]; other site 1280938006022 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938006023 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938006024 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1280938006025 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1280938006026 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1280938006027 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 1280938006028 quinone interaction residues [chemical binding]; other site 1280938006029 active site 1280938006030 catalytic residues [active] 1280938006031 FMN binding site [chemical binding]; other site 1280938006032 substrate binding site [chemical binding]; other site 1280938006033 Ribosome modulation factor [Translation, ribosomal structure and biogenesis]; Region: Rmf; COG3130 1280938006034 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1280938006035 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1280938006036 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 1280938006037 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 1280938006038 S-adenosylmethionine binding site [chemical binding]; other site 1280938006039 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1280938006040 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1280938006041 hypothetical protein; Provisional; Region: PRK11702 1280938006042 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938006043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938006044 active site 1280938006045 phosphorylation site [posttranslational modification] 1280938006046 intermolecular recognition site; other site 1280938006047 dimerization interface [polypeptide binding]; other site 1280938006048 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 1280938006049 DNA binding residues [nucleotide binding] 1280938006050 dimerization interface [polypeptide binding]; other site 1280938006051 PAS domain; Region: PAS_9; pfam13426 1280938006052 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 1280938006053 dimer interface [polypeptide binding]; other site 1280938006054 phosphorylation site [posttranslational modification] 1280938006055 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 1280938006056 ATP binding site [chemical binding]; other site 1280938006057 Mg2+ binding site [ion binding]; other site 1280938006058 G-X-G motif; other site 1280938006059 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938006060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938006061 active site 1280938006062 phosphorylation site [posttranslational modification] 1280938006063 intermolecular recognition site; other site 1280938006064 dimerization interface [polypeptide binding]; other site 1280938006065 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 1280938006066 putative binding surface; other site 1280938006067 active site 1280938006068 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1280938006069 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938006070 Zn2+ binding site [ion binding]; other site 1280938006071 Mg2+ binding site [ion binding]; other site 1280938006072 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1280938006073 Predicted membrane protein [Function unknown]; Region: COG5393 1280938006074 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1280938006075 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1280938006076 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938006077 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1280938006078 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 1280938006079 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938006080 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 1280938006081 putative C-terminal domain interface [polypeptide binding]; other site 1280938006082 putative GSH binding site (G-site) [chemical binding]; other site 1280938006083 putative dimer interface [polypeptide binding]; other site 1280938006084 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1280938006085 putative N-terminal domain interface [polypeptide binding]; other site 1280938006086 putative dimer interface [polypeptide binding]; other site 1280938006087 putative substrate binding pocket (H-site) [chemical binding]; other site 1280938006088 putative transcriptional regulator; Provisional; Region: PRK11640 1280938006089 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938006090 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1280938006091 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1280938006092 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938006093 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1280938006094 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1280938006095 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1280938006096 GTP binding site; other site 1280938006097 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 1280938006098 MPT binding site; other site 1280938006099 trimer interface [polypeptide binding]; other site 1280938006100 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1280938006101 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 1280938006102 dimer interface [polypeptide binding]; other site 1280938006103 putative functional site; other site 1280938006104 putative MPT binding site; other site 1280938006105 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938006106 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938006107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938006108 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1280938006109 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938006110 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1280938006111 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1280938006112 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 1280938006113 putative N- and C-terminal domain interface [polypeptide binding]; other site 1280938006114 putative active site [active] 1280938006115 MgATP binding site [chemical binding]; other site 1280938006116 catalytic site [active] 1280938006117 metal binding site [ion binding]; metal-binding site 1280938006118 putative carbohydrate binding site [chemical binding]; other site 1280938006119 lipid kinase; Reviewed; Region: PRK13054 1280938006120 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1280938006121 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1280938006122 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1280938006123 MOSC domain; Region: MOSC; pfam03473 1280938006124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1280938006125 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1280938006126 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 1280938006127 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938006128 catalytic residue [active] 1280938006129 ABC transporter ATPase component; Reviewed; Region: PRK11147 1280938006130 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938006131 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938006132 ABC transporter; Region: ABC_tran_2; pfam12848 1280938006133 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938006134 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 1280938006135 Ligand Binding Site [chemical binding]; other site 1280938006136 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1280938006137 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1280938006138 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 1280938006139 substrate binding site [chemical binding]; other site 1280938006140 oxyanion hole (OAH) forming residues; other site 1280938006141 trimer interface [polypeptide binding]; other site 1280938006142 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1280938006143 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938006144 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1280938006145 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 1280938006146 dimer interface [polypeptide binding]; other site 1280938006147 active site 1280938006148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4728 1280938006149 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1280938006150 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 1280938006151 active site 1280938006152 interdomain interaction site; other site 1280938006153 putative metal-binding site [ion binding]; other site 1280938006154 nucleotide binding site [chemical binding]; other site 1280938006155 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 1280938006156 domain I; other site 1280938006157 DNA binding groove [nucleotide binding] 1280938006158 phosphate binding site [ion binding]; other site 1280938006159 domain II; other site 1280938006160 domain III; other site 1280938006161 nucleotide binding site [chemical binding]; other site 1280938006162 catalytic site [active] 1280938006163 domain IV; other site 1280938006164 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1280938006165 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1280938006166 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1280938006167 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1280938006168 SOS-response cell division inhibitor, blocks FtsZ ring formation [Cell division and chromosome partitioning]; Region: SulA; COG5404 1280938006169 LexA repressor; Validated; Region: PRK00215 1280938006170 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1280938006171 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 1280938006172 Catalytic site [active] 1280938006173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938006174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938006175 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1280938006176 beta-hexosaminidase; Provisional; Region: PRK05337 1280938006177 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 1280938006178 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1280938006179 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1280938006180 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1280938006181 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 1280938006182 ATP binding site [chemical binding]; other site 1280938006183 putative Mg++ binding site [ion binding]; other site 1280938006184 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 1280938006185 nucleotide binding region [chemical binding]; other site 1280938006186 ATP-binding site [chemical binding]; other site 1280938006187 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1280938006188 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1280938006189 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1280938006190 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1280938006191 aromatic amino acid transporter; Provisional; Region: PRK10238 1280938006192 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1280938006193 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 1280938006194 E3 interaction surface; other site 1280938006195 lipoyl attachment site [posttranslational modification]; other site 1280938006196 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1280938006197 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1280938006198 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1280938006199 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1280938006200 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1280938006201 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1280938006202 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1280938006203 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 1280938006204 catalytic loop [active] 1280938006205 iron binding site [ion binding]; other site 1280938006206 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 1280938006207 FAD binding pocket [chemical binding]; other site 1280938006208 FAD binding motif [chemical binding]; other site 1280938006209 phosphate binding motif [ion binding]; other site 1280938006210 beta-alpha-beta structure motif; other site 1280938006211 NAD binding pocket [chemical binding]; other site 1280938006212 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1280938006213 ApbE family; Region: ApbE; pfam02424 1280938006214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1280938006215 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1280938006216 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938006217 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938006218 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1280938006219 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1280938006220 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1280938006221 active site 1280938006222 catalytic site [active] 1280938006223 metal binding site [ion binding]; metal-binding site 1280938006224 PilZ domain; Region: PilZ; pfam07238 1280938006225 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1280938006226 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1280938006227 FtsX-like permease family; Region: FtsX; pfam02687 1280938006228 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1280938006229 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1280938006230 Walker A/P-loop; other site 1280938006231 ATP binding site [chemical binding]; other site 1280938006232 Q-loop/lid; other site 1280938006233 ABC transporter signature motif; other site 1280938006234 Walker B; other site 1280938006235 D-loop; other site 1280938006236 H-loop/switch region; other site 1280938006237 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1280938006238 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1280938006239 FtsX-like permease family; Region: FtsX; pfam02687 1280938006240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1280938006241 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1280938006242 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1280938006243 Competence protein; Region: Competence; pfam03772 1280938006244 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1280938006245 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1280938006246 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1280938006247 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1280938006248 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1280938006249 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1280938006250 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1280938006251 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1280938006252 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1280938006253 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1280938006254 Ligand binding site; other site 1280938006255 oligomer interface; other site 1280938006256 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1280938006257 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1280938006258 active site 1280938006259 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1280938006260 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938006261 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1280938006262 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1280938006263 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 1280938006264 homodimer interface [polypeptide binding]; other site 1280938006265 oligonucleotide binding site [chemical binding]; other site 1280938006266 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1280938006267 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 1280938006268 RNA binding surface [nucleotide binding]; other site 1280938006269 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1280938006270 active site 1280938006271 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1280938006272 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 1280938006273 motif II; other site 1280938006274 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1280938006275 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1280938006276 tandem repeat interface [polypeptide binding]; other site 1280938006277 oligomer interface [polypeptide binding]; other site 1280938006278 active site residues [active] 1280938006279 Maf-like protein; Region: Maf; pfam02545 1280938006280 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 1280938006281 active site 1280938006282 dimer interface [polypeptide binding]; other site 1280938006283 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1280938006284 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1280938006285 putative phosphate acyltransferase; Provisional; Region: PRK05331 1280938006286 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1280938006287 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1280938006288 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1280938006289 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1280938006290 NAD(P) binding site [chemical binding]; other site 1280938006291 homotetramer interface [polypeptide binding]; other site 1280938006292 homodimer interface [polypeptide binding]; other site 1280938006293 active site 1280938006294 acyl carrier protein; Provisional; Region: acpP; PRK00982 1280938006295 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1280938006296 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 1280938006297 dimer interface [polypeptide binding]; other site 1280938006298 active site 1280938006299 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1280938006300 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 1280938006301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938006302 catalytic residue [active] 1280938006303 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1280938006304 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1280938006305 dimerization interface [polypeptide binding]; other site 1280938006306 thymidylate kinase; Validated; Region: tmk; PRK00698 1280938006307 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 1280938006308 TMP-binding site; other site 1280938006309 ATP-binding site [chemical binding]; other site 1280938006310 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1280938006311 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1280938006312 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 1280938006313 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1280938006314 active site 1280938006315 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1280938006316 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 1280938006317 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938006318 catalytic residue [active] 1280938006319 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938006320 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938006321 WHG domain; Region: WHG; pfam13305 1280938006322 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 1280938006323 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1280938006324 FeS/SAM binding site; other site 1280938006325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1280938006326 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1280938006327 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1280938006328 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938006329 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1280938006330 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 1280938006331 Ligand binding site [chemical binding]; other site 1280938006332 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1280938006333 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 1280938006334 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1280938006335 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1280938006336 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1280938006337 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1280938006338 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1280938006339 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 1280938006340 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938006341 nucleophilic elbow; other site 1280938006342 catalytic triad; other site 1280938006343 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1280938006344 active site 1280938006345 SAM binding site [chemical binding]; other site 1280938006346 homodimer interface [polypeptide binding]; other site 1280938006347 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1280938006348 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1280938006349 Predicted integral membrane protein [Function unknown]; Region: COG5446 1280938006350 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 1280938006351 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1280938006352 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1280938006353 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1280938006354 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1280938006355 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1280938006356 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1280938006357 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1280938006358 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1280938006359 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 1280938006360 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 1280938006361 Walker A motif; other site 1280938006362 ATP binding site [chemical binding]; other site 1280938006363 Walker B motif; other site 1280938006364 arginine finger; other site 1280938006365 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 1280938006366 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 1280938006367 metal ion-dependent adhesion site (MIDAS); other site 1280938006368 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 1280938006369 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1280938006370 dimer interface [polypeptide binding]; other site 1280938006371 active site 1280938006372 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1280938006373 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1280938006374 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; cd00538 1280938006375 PA/protease or protease-like domain interface [polypeptide binding]; other site 1280938006376 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 1280938006377 active site 1280938006378 metal binding site [ion binding]; metal-binding site 1280938006379 xanthine permease; Region: pbuX; TIGR03173 1280938006380 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1280938006381 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938006382 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1280938006383 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 1280938006384 putative substrate translocation pore; other site 1280938006385 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938006386 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 1280938006387 FMN binding site [chemical binding]; other site 1280938006388 active site 1280938006389 substrate binding site [chemical binding]; other site 1280938006390 catalytic residue [active] 1280938006391 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938006392 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938006393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006395 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 1280938006396 dimerization interface [polypeptide binding]; other site 1280938006397 LysE type translocator; Region: LysE; cl00565 1280938006398 Serine hydrolase; Region: Ser_hydrolase; cl17834 1280938006399 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938006400 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1280938006401 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1280938006402 Walker A/P-loop; other site 1280938006403 ATP binding site [chemical binding]; other site 1280938006404 Q-loop/lid; other site 1280938006405 ABC transporter signature motif; other site 1280938006406 Walker B; other site 1280938006407 D-loop; other site 1280938006408 H-loop/switch region; other site 1280938006409 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938006410 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 1280938006411 dimer interface [polypeptide binding]; other site 1280938006412 conserved gate region; other site 1280938006413 putative PBP binding loops; other site 1280938006414 ABC-ATPase subunit interface; other site 1280938006415 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938006416 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 1280938006417 dimer interface [polypeptide binding]; other site 1280938006418 conserved gate region; other site 1280938006419 putative PBP binding loops; other site 1280938006420 ABC-ATPase subunit interface; other site 1280938006421 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1280938006422 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 1280938006423 substrate binding pocket [chemical binding]; other site 1280938006424 membrane-bound complex binding site; other site 1280938006425 hinge residues; other site 1280938006426 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1280938006427 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1280938006428 metal binding site [ion binding]; metal-binding site 1280938006429 putative dimer interface [polypeptide binding]; other site 1280938006430 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1280938006431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006432 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 1280938006433 dimerization interface [polypeptide binding]; other site 1280938006434 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 1280938006435 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1280938006436 dimerization interface [polypeptide binding]; other site 1280938006437 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938006438 dimer interface [polypeptide binding]; other site 1280938006439 putative CheW interface [polypeptide binding]; other site 1280938006440 short chain dehydrogenase; Provisional; Region: PRK12744 1280938006441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938006442 NAD(P) binding site [chemical binding]; other site 1280938006443 active site 1280938006444 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938006445 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938006446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938006447 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938006448 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1280938006449 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1280938006450 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 1280938006451 ABC-ATPase subunit interface; other site 1280938006452 dimer interface [polypeptide binding]; other site 1280938006453 putative PBP binding regions; other site 1280938006454 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 1280938006455 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1280938006456 putative ligand binding residues [chemical binding]; other site 1280938006457 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1280938006458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938006459 Walker A/P-loop; other site 1280938006460 ATP binding site [chemical binding]; other site 1280938006461 Q-loop/lid; other site 1280938006462 ABC transporter signature motif; other site 1280938006463 Walker B; other site 1280938006464 H-loop/switch region; other site 1280938006465 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1280938006466 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 1280938006467 N-terminal plug; other site 1280938006468 ligand-binding site [chemical binding]; other site 1280938006469 Predicted membrane protein [Function unknown]; Region: COG1971 1280938006470 Domain of unknown function DUF; Region: DUF204; pfam02659 1280938006471 Domain of unknown function DUF; Region: DUF204; pfam02659 1280938006472 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1280938006473 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1280938006474 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1280938006475 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1280938006476 active site 1280938006477 putative homodimer interface [polypeptide binding]; other site 1280938006478 SAM binding site [chemical binding]; other site 1280938006479 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1280938006480 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 1280938006481 S-adenosylmethionine binding site [chemical binding]; other site 1280938006482 precorrin-3B synthase; Region: CobG; TIGR02435 1280938006483 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1280938006484 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1280938006485 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1280938006486 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1280938006487 homodimer interface [polypeptide binding]; other site 1280938006488 active site 1280938006489 SAM binding site [chemical binding]; other site 1280938006490 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1280938006491 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1280938006492 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1280938006493 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1280938006494 active site 1280938006495 SAM binding site [chemical binding]; other site 1280938006496 homodimer interface [polypeptide binding]; other site 1280938006497 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 1280938006498 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938006499 substrate binding pocket [chemical binding]; other site 1280938006500 membrane-bound complex binding site; other site 1280938006501 hinge residues; other site 1280938006502 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1280938006503 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938006504 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938006505 ligand binding site [chemical binding]; other site 1280938006506 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938006507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938006508 active site 1280938006509 phosphorylation site [posttranslational modification] 1280938006510 intermolecular recognition site; other site 1280938006511 dimerization interface [polypeptide binding]; other site 1280938006512 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 1280938006513 DNA binding residues [nucleotide binding] 1280938006514 dimerization interface [polypeptide binding]; other site 1280938006515 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 1280938006516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938006517 DNA-binding site [nucleotide binding]; DNA binding site 1280938006518 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 1280938006519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938006520 homodimer interface [polypeptide binding]; other site 1280938006521 catalytic residue [active] 1280938006522 RNA polymerase sigma factor; Provisional; Region: PRK12513 1280938006523 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938006524 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 1280938006525 DNA binding residues [nucleotide binding] 1280938006526 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 1280938006527 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938006528 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938006529 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 1280938006530 acyl-activating enzyme (AAE) consensus motif; other site 1280938006531 acyl-activating enzyme (AAE) consensus motif; other site 1280938006532 putative AMP binding site [chemical binding]; other site 1280938006533 putative active site [active] 1280938006534 putative CoA binding site [chemical binding]; other site 1280938006535 short chain dehydrogenase; Provisional; Region: PRK08278 1280938006536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938006537 NAD(P) binding site [chemical binding]; other site 1280938006538 active site 1280938006539 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1280938006540 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938006541 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1280938006542 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1280938006543 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 1280938006544 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1280938006545 enoyl-CoA hydratase; Provisional; Region: PRK05995 1280938006546 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 1280938006547 substrate binding site [chemical binding]; other site 1280938006548 oxyanion hole (OAH) forming residues; other site 1280938006549 trimer interface [polypeptide binding]; other site 1280938006550 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938006551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938006552 active site 1280938006553 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1280938006554 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1280938006555 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1280938006556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938006557 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938006558 NAD(P) binding site [chemical binding]; other site 1280938006559 active site 1280938006560 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1280938006561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938006562 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938006563 CAAX protease self-immunity; Region: Abi; pfam02517 1280938006564 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1280938006565 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 1280938006566 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 1280938006567 ATP binding site [chemical binding]; other site 1280938006568 Mg2+ binding site [ion binding]; other site 1280938006569 G-X-G motif; other site 1280938006570 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938006571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938006572 active site 1280938006573 phosphorylation site [posttranslational modification] 1280938006574 intermolecular recognition site; other site 1280938006575 dimerization interface [polypeptide binding]; other site 1280938006576 Predicted membrane protein [Function unknown]; Region: COG4125 1280938006577 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1280938006578 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1280938006579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006581 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 1280938006582 dimerization interface [polypeptide binding]; other site 1280938006583 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 1280938006584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006586 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 1280938006587 putative effector binding pocket; other site 1280938006588 putative dimerization interface [polypeptide binding]; other site 1280938006589 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 1280938006590 active site 1280938006591 dimer interface [polypeptide binding]; other site 1280938006592 MoxR-like ATPases [General function prediction only]; Region: COG0714 1280938006593 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 1280938006594 Walker A motif; other site 1280938006595 ATP binding site [chemical binding]; other site 1280938006596 Walker B motif; other site 1280938006597 arginine finger; other site 1280938006598 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1280938006599 Protein of unknown function DUF58; Region: DUF58; pfam01882 1280938006600 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1280938006601 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1280938006602 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1280938006603 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1280938006604 Uncharacterized conserved protein [Function unknown]; Region: COG5607 1280938006605 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1280938006606 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 1280938006607 active site 1280938006608 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 1280938006609 active site 2 [active] 1280938006610 active site 1 [active] 1280938006611 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938006612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938006613 metal binding site [ion binding]; metal-binding site 1280938006614 active site 1280938006615 I-site; other site 1280938006616 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 1280938006617 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 1280938006618 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 1280938006619 dimerization interface [polypeptide binding]; other site 1280938006620 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938006621 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938006622 dimer interface [polypeptide binding]; other site 1280938006623 putative CheW interface [polypeptide binding]; other site 1280938006624 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1280938006625 active site 1280938006626 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 1280938006627 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 1280938006628 substrate binding pocket [chemical binding]; other site 1280938006629 membrane-bound complex binding site; other site 1280938006630 hinge residues; other site 1280938006631 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 1280938006632 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938006633 catalytic residue [active] 1280938006634 Predicted membrane protein [Function unknown]; Region: COG2259 1280938006635 lipase chaperone; Provisional; Region: PRK01294 1280938006636 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1280938006637 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1280938006638 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1280938006639 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1280938006640 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1280938006641 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1280938006642 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1280938006643 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1280938006644 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1280938006645 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1280938006646 Walker A/P-loop; other site 1280938006647 ATP binding site [chemical binding]; other site 1280938006648 Q-loop/lid; other site 1280938006649 ABC transporter signature motif; other site 1280938006650 Walker B; other site 1280938006651 D-loop; other site 1280938006652 H-loop/switch region; other site 1280938006653 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 1280938006654 active site 1280938006655 catalytic triad [active] 1280938006656 oxyanion hole [active] 1280938006657 switch loop; other site 1280938006658 L,D-transpeptidase; Provisional; Region: PRK10260 1280938006659 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1280938006660 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1280938006661 Protein of unknown function (DUF3359); Region: DUF3359; pfam11839 1280938006662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1280938006663 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1280938006664 elongation factor P; Validated; Region: PRK00529 1280938006665 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1280938006666 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 1280938006667 RNA binding site [nucleotide binding]; other site 1280938006668 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 1280938006669 RNA binding site [nucleotide binding]; other site 1280938006670 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1280938006671 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1280938006672 MarR family; Region: MarR; pfam01047 1280938006673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006675 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 1280938006676 putative effector binding pocket; other site 1280938006677 dimerization interface [polypeptide binding]; other site 1280938006678 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1280938006679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006681 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 1280938006682 dimerization interface [polypeptide binding]; other site 1280938006683 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1280938006684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1280938006685 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1280938006686 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1280938006687 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 1280938006688 enoyl-CoA hydratase; Provisional; Region: PRK06563 1280938006689 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 1280938006690 substrate binding site [chemical binding]; other site 1280938006691 oxyanion hole (OAH) forming residues; other site 1280938006692 trimer interface [polypeptide binding]; other site 1280938006693 helicase 45; Provisional; Region: PTZ00424 1280938006694 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 1280938006695 ATP binding site [chemical binding]; other site 1280938006696 Mg++ binding site [ion binding]; other site 1280938006697 motif III; other site 1280938006698 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 1280938006699 nucleotide binding region [chemical binding]; other site 1280938006700 ATP-binding site [chemical binding]; other site 1280938006701 DbpA RNA binding domain; Region: DbpA; pfam03880 1280938006702 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 1280938006703 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1280938006704 putative active site [active] 1280938006705 metal binding site [ion binding]; metal-binding site 1280938006706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006708 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 1280938006709 putative effector binding pocket; other site 1280938006710 dimerization interface [polypeptide binding]; other site 1280938006711 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1280938006712 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1280938006713 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938006714 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938006715 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1280938006716 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 1280938006717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006719 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1280938006720 putative substrate binding pocket [chemical binding]; other site 1280938006721 putative dimerization interface [polypeptide binding]; other site 1280938006722 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 1280938006723 Ligand Binding Site [chemical binding]; other site 1280938006724 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1280938006725 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1280938006726 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1280938006727 putative active site [active] 1280938006728 Zn binding site [ion binding]; other site 1280938006729 heat shock protein HtpX; Provisional; Region: PRK05457 1280938006730 aminotransferase AlaT; Validated; Region: PRK09265 1280938006731 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 1280938006732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938006733 homodimer interface [polypeptide binding]; other site 1280938006734 catalytic residue [active] 1280938006735 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1280938006736 SelR domain; Region: SelR; pfam01641 1280938006737 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 1280938006738 catalytic residues [active] 1280938006739 dimer interface [polypeptide binding]; other site 1280938006740 MarR family; Region: MarR_2; cl17246 1280938006741 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1280938006742 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1280938006743 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 1280938006744 ATP binding site [chemical binding]; other site 1280938006745 Mg2+ binding site [ion binding]; other site 1280938006746 G-X-G motif; other site 1280938006747 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938006748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938006749 active site 1280938006750 phosphorylation site [posttranslational modification] 1280938006751 intermolecular recognition site; other site 1280938006752 dimerization interface [polypeptide binding]; other site 1280938006753 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1280938006754 Protein of unknown function (DUF815); Region: DUF815; pfam05673 1280938006755 Walker A motif; other site 1280938006756 ATP binding site [chemical binding]; other site 1280938006757 Walker B motif; other site 1280938006758 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1280938006759 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938006760 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 1280938006761 C-terminal domain interface [polypeptide binding]; other site 1280938006762 GSH binding site (G-site) [chemical binding]; other site 1280938006763 dimer interface [polypeptide binding]; other site 1280938006764 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1280938006765 N-terminal domain interface [polypeptide binding]; other site 1280938006766 dimer interface [polypeptide binding]; other site 1280938006767 substrate binding pocket (H-site) [chemical binding]; other site 1280938006768 integrase; Provisional; Region: int; PHA02601 1280938006769 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 1280938006770 active site 1280938006771 DNA binding site [nucleotide binding] 1280938006772 Int/Topo IB signature motif; other site 1280938006773 Killing trait; Region: RebB; pfam11747 1280938006774 Killing trait; Region: RebB; pfam11747 1280938006775 Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]; Region: PheS; COG0016 1280938006776 Killing trait; Region: RebB; pfam11747 1280938006777 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1280938006778 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1280938006779 DNA binding residues [nucleotide binding] 1280938006780 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1280938006781 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 1280938006782 ligand binding site [chemical binding]; other site 1280938006783 flexible hinge region; other site 1280938006784 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1280938006785 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1280938006786 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1280938006787 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1280938006788 active site 1280938006789 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1280938006790 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1280938006791 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1280938006792 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938006793 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1280938006794 putative C-terminal domain interface [polypeptide binding]; other site 1280938006795 putative GSH binding site (G-site) [chemical binding]; other site 1280938006796 putative dimer interface [polypeptide binding]; other site 1280938006797 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1280938006798 putative N-terminal domain interface [polypeptide binding]; other site 1280938006799 putative dimer interface [polypeptide binding]; other site 1280938006800 putative substrate binding pocket (H-site) [chemical binding]; other site 1280938006801 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1280938006802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938006803 Walker A/P-loop; other site 1280938006804 ATP binding site [chemical binding]; other site 1280938006805 Q-loop/lid; other site 1280938006806 ABC transporter signature motif; other site 1280938006807 Walker B; other site 1280938006808 D-loop; other site 1280938006809 H-loop/switch region; other site 1280938006810 inner membrane transport permease; Provisional; Region: PRK15066 1280938006811 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1280938006812 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1280938006813 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 1280938006814 dimerization interface [polypeptide binding]; other site 1280938006815 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 1280938006816 dimer interface [polypeptide binding]; other site 1280938006817 phosphorylation site [posttranslational modification] 1280938006818 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 1280938006819 ATP binding site [chemical binding]; other site 1280938006820 Mg2+ binding site [ion binding]; other site 1280938006821 G-X-G motif; other site 1280938006822 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1280938006823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938006824 active site 1280938006825 phosphorylation site [posttranslational modification] 1280938006826 intermolecular recognition site; other site 1280938006827 dimerization interface [polypeptide binding]; other site 1280938006828 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 1280938006829 DNA binding site [nucleotide binding] 1280938006830 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1280938006831 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1280938006832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1280938006833 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1280938006834 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1280938006835 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1280938006836 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938006837 Zn2+ binding site [ion binding]; other site 1280938006838 Mg2+ binding site [ion binding]; other site 1280938006839 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1280938006840 transcriptional regulator protein; Region: phnR; TIGR03337 1280938006841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938006842 DNA-binding site [nucleotide binding]; DNA binding site 1280938006843 UTRA domain; Region: UTRA; pfam07702 1280938006844 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 1280938006845 active site 1280938006846 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1280938006847 PilZ domain; Region: PilZ; pfam07238 1280938006848 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938006849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938006850 active site 1280938006851 phosphorylation site [posttranslational modification] 1280938006852 intermolecular recognition site; other site 1280938006853 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1280938006854 dimerization interface [polypeptide binding]; other site 1280938006855 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1280938006856 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 1280938006857 anti sigma factor interaction site; other site 1280938006858 regulatory phosphorylation site [posttranslational modification]; other site 1280938006859 transaldolase-like protein; Provisional; Region: PTZ00411 1280938006860 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1280938006861 active site 1280938006862 dimer interface [polypeptide binding]; other site 1280938006863 catalytic residue [active] 1280938006864 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1280938006865 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 1280938006866 FMN binding site [chemical binding]; other site 1280938006867 active site 1280938006868 catalytic residues [active] 1280938006869 substrate binding site [chemical binding]; other site 1280938006870 Right handed beta helix region; Region: Beta_helix; pfam13229 1280938006871 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1280938006872 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938006873 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938006874 dimer interface [polypeptide binding]; other site 1280938006875 putative CheW interface [polypeptide binding]; other site 1280938006876 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1280938006877 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1280938006878 metal binding site [ion binding]; metal-binding site 1280938006879 dimer interface [polypeptide binding]; other site 1280938006880 GAF domain; Region: GAF_2; pfam13185 1280938006881 Predicted transcriptional regulator [Transcription]; Region: COG3655 1280938006882 salt bridge; other site 1280938006883 non-specific DNA binding site [nucleotide binding]; other site 1280938006884 sequence-specific DNA binding site [nucleotide binding]; other site 1280938006885 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1280938006886 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 1280938006887 active site 1280938006888 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1280938006889 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1280938006890 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1280938006891 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 1280938006892 non-specific DNA binding site [nucleotide binding]; other site 1280938006893 salt bridge; other site 1280938006894 sequence-specific DNA binding site [nucleotide binding]; other site 1280938006895 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 1280938006896 putative active site [active] 1280938006897 TPR repeat; Region: TPR_11; pfam13414 1280938006898 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 1280938006899 binding surface 1280938006900 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1280938006901 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938006902 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938006903 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1280938006904 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1280938006905 GAF domain; Region: GAF; pfam01590 1280938006906 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938006907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938006908 metal binding site [ion binding]; metal-binding site 1280938006909 active site 1280938006910 I-site; other site 1280938006911 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1280938006912 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_19; cd04678 1280938006913 nudix motif; other site 1280938006914 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1280938006915 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 1280938006916 substrate binding site [chemical binding]; other site 1280938006917 oxyanion hole (OAH) forming residues; other site 1280938006918 trimer interface [polypeptide binding]; other site 1280938006919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938006920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938006921 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1280938006922 Serine hydrolase; Region: Ser_hydrolase; cl17834 1280938006923 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938006924 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1280938006925 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938006926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938006927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938006928 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 1280938006929 dimerization interface [polypeptide binding]; other site 1280938006930 Predicted membrane protein [Function unknown]; Region: COG4125 1280938006931 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1280938006932 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1280938006933 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1280938006934 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 1280938006935 secondary substrate binding site; other site 1280938006936 primary substrate binding site; other site 1280938006937 inhibition loop; other site 1280938006938 dimerization interface [polypeptide binding]; other site 1280938006939 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1280938006940 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1280938006941 Predicted membrane protein [Function unknown]; Region: COG1238 1280938006942 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1280938006943 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1280938006944 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1280938006945 DNA-specific endonuclease I; Provisional; Region: PRK15137 1280938006946 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1280938006947 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 1280938006948 active site 1280938006949 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1280938006950 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938006951 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1280938006952 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 1280938006953 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1280938006954 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 1280938006955 active site 1280938006956 dimer interface [polypeptide binding]; other site 1280938006957 motif 1; other site 1280938006958 motif 2; other site 1280938006959 motif 3; other site 1280938006960 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 1280938006961 anticodon binding site; other site 1280938006962 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1280938006963 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1280938006964 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1280938006965 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1280938006966 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1280938006967 23S rRNA binding site [nucleotide binding]; other site 1280938006968 L21 binding site [polypeptide binding]; other site 1280938006969 L13 binding site [polypeptide binding]; other site 1280938006970 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1280938006971 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1280938006972 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 1280938006973 dimer interface [polypeptide binding]; other site 1280938006974 motif 1; other site 1280938006975 active site 1280938006976 motif 2; other site 1280938006977 motif 3; other site 1280938006978 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1280938006979 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 1280938006980 putative tRNA-binding site [nucleotide binding]; other site 1280938006981 B3/4 domain; Region: B3_4; pfam03483 1280938006982 tRNA synthetase B5 domain; Region: B5; smart00874 1280938006983 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 1280938006984 dimer interface [polypeptide binding]; other site 1280938006985 motif 1; other site 1280938006986 motif 3; other site 1280938006987 motif 2; other site 1280938006988 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1280938006989 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 1280938006990 IHF dimer interface [polypeptide binding]; other site 1280938006991 IHF - DNA interface [nucleotide binding]; other site 1280938006992 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1280938006993 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1280938006994 DNA binding residues [nucleotide binding] 1280938006995 Integrase core domain; Region: rve_3; cl15866 1280938006996 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1280938006997 Helix-turn-helix domain; Region: HTH_38; pfam13936 1280938006998 Integrase core domain; Region: rve; pfam00665 1280938006999 HTH-like domain; Region: HTH_21; pfam13276 1280938007000 Integrase core domain; Region: rve; pfam00665 1280938007001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1280938007002 Transposase; Region: HTH_Tnp_1; pfam01527 1280938007003 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 1280938007004 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1280938007005 ATP binding site [chemical binding]; other site 1280938007006 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 1280938007007 putative Mg++ binding site [ion binding]; other site 1280938007008 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1280938007009 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 1280938007010 active site 1280938007011 Int/Topo IB signature motif; other site 1280938007012 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1280938007013 Part of AAA domain; Region: AAA_19; pfam13245 1280938007014 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1280938007015 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 1280938007016 homodimer interface [polypeptide binding]; other site 1280938007017 oligomer interface [polypeptide binding]; other site 1280938007018 chemical substrate binding site [chemical binding]; other site 1280938007019 metal binding site [ion binding]; metal-binding site 1280938007020 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 1280938007021 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1280938007022 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1280938007023 active site 1280938007024 ATP binding site [chemical binding]; other site 1280938007025 substrate binding site [chemical binding]; other site 1280938007026 activation loop (A-loop); other site 1280938007027 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1280938007028 AAA domain; Region: AAA_11; pfam13086 1280938007029 Part of AAA domain; Region: AAA_19; pfam13245 1280938007030 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1280938007031 AAA domain; Region: AAA_12; pfam13087 1280938007032 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1280938007033 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1280938007034 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 1280938007035 Zeta toxin; Region: Zeta_toxin; pfam06414 1280938007036 Walker A motif; other site 1280938007037 ATP binding site [chemical binding]; other site 1280938007038 Walker B motif; other site 1280938007039 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1280938007040 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1280938007041 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1280938007042 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 1280938007043 dimer interface [polypeptide binding]; other site 1280938007044 RNA polymerase sigma factor; Provisional; Region: PRK12528 1280938007045 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1280938007046 DNA binding residues [nucleotide binding] 1280938007047 fec operon regulator FecR; Reviewed; Region: PRK09774 1280938007048 FecR protein; Region: FecR; pfam04773 1280938007049 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1280938007050 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1280938007051 potential catalytic triad [active] 1280938007052 conserved cys residue [active] 1280938007053 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1280938007054 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1280938007055 DNA binding residues [nucleotide binding] 1280938007056 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938007057 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938007058 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938007059 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938007060 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 1280938007061 putative active site [active] 1280938007062 putative FMN binding site [chemical binding]; other site 1280938007063 putative substrate binding site [chemical binding]; other site 1280938007064 putative catalytic residue [active] 1280938007065 Ferredoxin [Energy production and conversion]; Region: COG1146 1280938007066 4Fe-4S binding domain; Region: Fer4; cl02805 1280938007067 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1280938007068 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1280938007069 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 1280938007070 putative [Fe4-S4] binding site [ion binding]; other site 1280938007071 putative molybdopterin cofactor binding site [chemical binding]; other site 1280938007072 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1280938007073 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 1280938007074 putative molybdopterin cofactor binding site; other site 1280938007075 Predicted transcriptional regulators [Transcription]; Region: COG1733 1280938007076 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1280938007077 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 1280938007078 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1280938007079 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938007080 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938007081 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1280938007082 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 1280938007083 dimer interface [polypeptide binding]; other site 1280938007084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938007085 catalytic residue [active] 1280938007086 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1280938007087 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1280938007088 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 1280938007089 Walker A motif; other site 1280938007090 ATP binding site [chemical binding]; other site 1280938007091 Walker B motif; other site 1280938007092 arginine finger; other site 1280938007093 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1280938007094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1280938007095 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938007096 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938007097 Tse2 immunity protein Tsi2 and similar proteins; Region: Tsi2_like; cd11690 1280938007098 dimer interface [polypeptide binding]; other site 1280938007099 Transmembrane secretion effector; Region: MFS_3; pfam05977 1280938007100 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 1280938007101 putative substrate translocation pore; other site 1280938007102 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938007103 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1280938007104 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 1280938007105 active site 1280938007106 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 1280938007107 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938007108 catalytic triad [active] 1280938007109 dimer interface [polypeptide binding]; other site 1280938007110 conserved cis-peptide bond; other site 1280938007111 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 1280938007112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007113 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938007114 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007115 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1280938007116 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 1280938007117 catalytic residues [active] 1280938007118 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 1280938007119 Predicted transcriptional regulator [Transcription]; Region: COG1959 1280938007120 Transcriptional regulator; Region: Rrf2; pfam02082 1280938007121 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1280938007122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938007123 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1280938007124 outer membrane receptor FepA; Provisional; Region: PRK13524 1280938007125 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 1280938007126 N-terminal plug; other site 1280938007127 ligand-binding site [chemical binding]; other site 1280938007128 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938007129 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 1280938007130 phosphorylation site [posttranslational modification] 1280938007131 dimer interface [polypeptide binding]; other site 1280938007132 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 1280938007133 ATP binding site [chemical binding]; other site 1280938007134 Mg2+ binding site [ion binding]; other site 1280938007135 G-X-G motif; other site 1280938007136 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938007137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938007138 active site 1280938007139 phosphorylation site [posttranslational modification] 1280938007140 intermolecular recognition site; other site 1280938007141 dimerization interface [polypeptide binding]; other site 1280938007142 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 1280938007143 DNA binding site [nucleotide binding] 1280938007144 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938007145 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938007146 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938007147 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1280938007148 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1280938007149 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1280938007150 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 1280938007151 tetramer interface [polypeptide binding]; other site 1280938007152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938007153 catalytic residue [active] 1280938007154 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1280938007155 SnoaL-like domain; Region: SnoaL_2; pfam12680 1280938007156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938007157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007158 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 1280938007159 putative effector binding pocket; other site 1280938007160 dimerization interface [polypeptide binding]; other site 1280938007161 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1280938007162 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1280938007163 NADP binding site [chemical binding]; other site 1280938007164 dimer interface [polypeptide binding]; other site 1280938007165 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 1280938007166 S-adenosylmethionine binding site [chemical binding]; other site 1280938007167 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1280938007168 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1280938007169 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1280938007170 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1280938007171 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 1280938007172 Walker A motif; other site 1280938007173 ATP binding site [chemical binding]; other site 1280938007174 Walker B motif; other site 1280938007175 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1280938007176 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938007177 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938007178 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1280938007179 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1280938007180 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1280938007181 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1280938007182 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1280938007183 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1280938007184 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1280938007185 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 1280938007186 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1280938007187 active site 1280938007188 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1280938007189 GAF domain; Region: GAF; pfam01590 1280938007190 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 1280938007191 Walker A motif; other site 1280938007192 ATP binding site [chemical binding]; other site 1280938007193 Walker B motif; other site 1280938007194 arginine finger; other site 1280938007195 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1280938007196 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 1280938007197 heme-binding site [chemical binding]; other site 1280938007198 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 1280938007199 FAD binding pocket [chemical binding]; other site 1280938007200 FAD binding motif [chemical binding]; other site 1280938007201 phosphate binding motif [ion binding]; other site 1280938007202 beta-alpha-beta structure motif; other site 1280938007203 NAD binding pocket [chemical binding]; other site 1280938007204 Heme binding pocket [chemical binding]; other site 1280938007205 NnrS protein; Region: NnrS; cl01258 1280938007206 hypothetical protein; Provisional; Region: PRK10318 1280938007207 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1280938007208 Predicted membrane protein [Function unknown]; Region: COG3212 1280938007209 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1280938007210 Predicted membrane protein [Function unknown]; Region: COG3212 1280938007211 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938007212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938007213 active site 1280938007214 phosphorylation site [posttranslational modification] 1280938007215 intermolecular recognition site; other site 1280938007216 dimerization interface [polypeptide binding]; other site 1280938007217 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 1280938007218 DNA binding site [nucleotide binding] 1280938007219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938007220 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 1280938007221 ATP binding site [chemical binding]; other site 1280938007222 Mg2+ binding site [ion binding]; other site 1280938007223 G-X-G motif; other site 1280938007224 Cache domain; Region: Cache_1; pfam02743 1280938007225 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 1280938007226 dimerization interface [polypeptide binding]; other site 1280938007227 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938007228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938007229 dimer interface [polypeptide binding]; other site 1280938007230 putative CheW interface [polypeptide binding]; other site 1280938007231 Predicted permease [General function prediction only]; Region: COG2056 1280938007232 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1280938007233 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 1280938007234 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 1280938007235 dimerization interface [polypeptide binding]; other site 1280938007236 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938007237 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938007238 dimer interface [polypeptide binding]; other site 1280938007239 putative CheW interface [polypeptide binding]; other site 1280938007240 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1280938007241 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1280938007242 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 1280938007243 S-adenosylmethionine binding site [chemical binding]; other site 1280938007244 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1280938007245 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1280938007246 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1280938007247 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1280938007248 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1280938007249 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1280938007250 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1280938007251 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1280938007252 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1280938007253 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1280938007254 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1280938007255 4Fe-4S binding domain; Region: Fer4; pfam00037 1280938007256 4Fe-4S binding domain; Region: Fer4; pfam00037 1280938007257 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1280938007258 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1280938007259 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 1280938007260 catalytic loop [active] 1280938007261 iron binding site [ion binding]; other site 1280938007262 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1280938007263 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 1280938007264 [4Fe-4S] binding site [ion binding]; other site 1280938007265 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 1280938007266 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1280938007267 SLBB domain; Region: SLBB; pfam10531 1280938007268 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1280938007269 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1280938007270 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 1280938007271 putative dimer interface [polypeptide binding]; other site 1280938007272 [2Fe-2S] cluster binding site [ion binding]; other site 1280938007273 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1280938007274 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1280938007275 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1280938007276 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1280938007277 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1280938007278 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 1280938007279 CoenzymeA binding site [chemical binding]; other site 1280938007280 subunit interaction site [polypeptide binding]; other site 1280938007281 PHB binding site; other site 1280938007282 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1280938007283 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 1280938007284 tetramer interface [polypeptide binding]; other site 1280938007285 active site 1280938007286 Mg2+/Mn2+ binding site [ion binding]; other site 1280938007287 isocitrate lyase; Region: PLN02892 1280938007288 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938007289 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938007290 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938007291 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938007292 Coenzyme A binding pocket [chemical binding]; other site 1280938007293 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1280938007294 Cupin domain; Region: Cupin_2; cl17218 1280938007295 adenylosuccinate lyase; Provisional; Region: PRK09285 1280938007296 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1280938007297 tetramer interface [polypeptide binding]; other site 1280938007298 active site 1280938007299 EamA-like transporter family; Region: EamA; pfam00892 1280938007300 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1280938007301 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 1280938007302 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1280938007303 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 1280938007304 Ligand Binding Site [chemical binding]; other site 1280938007305 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 1280938007306 nudix motif; other site 1280938007307 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1280938007308 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 1280938007309 isocitrate dehydrogenase; Validated; Region: PRK07362 1280938007310 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1280938007311 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 1280938007312 DNA-binding site [nucleotide binding]; DNA binding site 1280938007313 RNA-binding motif; other site 1280938007314 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1280938007315 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1280938007316 Clp amino terminal domain; Region: Clp_N; pfam02861 1280938007317 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 1280938007318 Walker A motif; other site 1280938007319 ATP binding site [chemical binding]; other site 1280938007320 Walker B motif; other site 1280938007321 arginine finger; other site 1280938007322 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 1280938007323 Walker A motif; other site 1280938007324 ATP binding site [chemical binding]; other site 1280938007325 Walker B motif; other site 1280938007326 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1280938007327 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 1280938007328 rRNA binding site [nucleotide binding]; other site 1280938007329 predicted 30S ribosome binding site; other site 1280938007330 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1280938007331 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1280938007332 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1280938007333 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1280938007334 thioredoxin reductase; Provisional; Region: PRK10262 1280938007335 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938007336 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938007337 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1280938007338 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1280938007339 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1280938007340 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1280938007341 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1280938007342 recombination factor protein RarA; Reviewed; Region: PRK13342 1280938007343 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 1280938007344 Walker A motif; other site 1280938007345 ATP binding site [chemical binding]; other site 1280938007346 Walker B motif; other site 1280938007347 arginine finger; other site 1280938007348 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1280938007349 seryl-tRNA synthetase; Provisional; Region: PRK05431 1280938007350 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1280938007351 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 1280938007352 dimer interface [polypeptide binding]; other site 1280938007353 active site 1280938007354 motif 1; other site 1280938007355 motif 2; other site 1280938007356 motif 3; other site 1280938007357 siroheme synthase; Provisional; Region: cysG; PRK10637 1280938007358 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1280938007359 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1280938007360 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1280938007361 active site 1280938007362 SAM binding site [chemical binding]; other site 1280938007363 homodimer interface [polypeptide binding]; other site 1280938007364 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1280938007365 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1280938007366 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1280938007367 putative dimer interface [polypeptide binding]; other site 1280938007368 N-terminal domain interface [polypeptide binding]; other site 1280938007369 putative substrate binding pocket (H-site) [chemical binding]; other site 1280938007370 hypothetical protein; Validated; Region: PRK09071 1280938007371 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1280938007372 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1280938007373 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1280938007374 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 1280938007375 sulfur relay protein TusC; Validated; Region: PRK00211 1280938007376 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1280938007377 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1280938007378 YccA-like proteins; Region: YccA_like; cd10433 1280938007379 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 1280938007380 active site residue [active] 1280938007381 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 1280938007382 active site residue [active] 1280938007383 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1280938007384 active site residue [active] 1280938007385 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 1280938007386 active site residue [active] 1280938007387 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1280938007388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938007389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007390 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 1280938007391 dimerization interface [polypeptide binding]; other site 1280938007392 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 1280938007393 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1280938007394 dimer interface [polypeptide binding]; other site 1280938007395 active site 1280938007396 non-prolyl cis peptide bond; other site 1280938007397 insertion regions; other site 1280938007398 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1280938007399 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 1280938007400 substrate binding pocket [chemical binding]; other site 1280938007401 membrane-bound complex binding site; other site 1280938007402 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 1280938007403 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1280938007404 dimer interface [polypeptide binding]; other site 1280938007405 active site 1280938007406 non-prolyl cis peptide bond; other site 1280938007407 insertion regions; other site 1280938007408 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938007409 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1280938007410 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1280938007411 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 1280938007412 substrate binding pocket [chemical binding]; other site 1280938007413 membrane-bound complex binding site; other site 1280938007414 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 1280938007415 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1280938007416 membrane-bound complex binding site; other site 1280938007417 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1280938007418 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 1280938007419 substrate binding pocket [chemical binding]; other site 1280938007420 membrane-bound complex binding site; other site 1280938007421 hinge residues; other site 1280938007422 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1280938007423 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938007424 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938007425 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 1280938007426 DNA binding residues [nucleotide binding] 1280938007427 dimerization interface [polypeptide binding]; other site 1280938007428 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938007429 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 1280938007430 N-terminal plug; other site 1280938007431 ligand-binding site [chemical binding]; other site 1280938007432 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1280938007433 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1280938007434 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938007435 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938007436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007437 hypothetical protein; Provisional; Region: PRK06753 1280938007438 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1280938007439 response regulator; Provisional; Region: PRK09483 1280938007440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938007441 active site 1280938007442 phosphorylation site [posttranslational modification] 1280938007443 intermolecular recognition site; other site 1280938007444 dimerization interface [polypeptide binding]; other site 1280938007445 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 1280938007446 DNA binding residues [nucleotide binding] 1280938007447 dimerization interface [polypeptide binding]; other site 1280938007448 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1280938007449 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1280938007450 GIY-YIG motif/motif A; other site 1280938007451 active site 1280938007452 catalytic site [active] 1280938007453 putative DNA binding site [nucleotide binding]; other site 1280938007454 metal binding site [ion binding]; metal-binding site 1280938007455 UvrB/uvrC motif; Region: UVR; pfam02151 1280938007456 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1280938007457 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 1280938007458 DNA binding site [nucleotide binding] 1280938007459 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1280938007460 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 1280938007461 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1280938007462 substrate binding pocket [chemical binding]; other site 1280938007463 membrane-bound complex binding site; other site 1280938007464 hinge residues; other site 1280938007465 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938007466 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 1280938007467 substrate binding pocket [chemical binding]; other site 1280938007468 membrane-bound complex binding site; other site 1280938007469 hinge residues; other site 1280938007470 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 1280938007471 dimer interface [polypeptide binding]; other site 1280938007472 phosphorylation site [posttranslational modification] 1280938007473 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 1280938007474 ATP binding site [chemical binding]; other site 1280938007475 Mg2+ binding site [ion binding]; other site 1280938007476 G-X-G motif; other site 1280938007477 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938007478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938007479 active site 1280938007480 phosphorylation site [posttranslational modification] 1280938007481 intermolecular recognition site; other site 1280938007482 dimerization interface [polypeptide binding]; other site 1280938007483 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1280938007484 ProQ/FINO family; Region: ProQ; pfam04352 1280938007485 putative RNA binding sites [nucleotide binding]; other site 1280938007486 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1280938007487 Tryptophan 2,3-dioxygenase (vermilion) [Amino acid transport and metabolism]; Region: TDO2; COG3483 1280938007488 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1280938007489 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938007490 Coenzyme A binding pocket [chemical binding]; other site 1280938007491 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938007492 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1280938007493 putative DNA binding site [nucleotide binding]; other site 1280938007494 putative Zn2+ binding site [ion binding]; other site 1280938007495 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938007496 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1280938007497 EamA-like transporter family; Region: EamA; pfam00892 1280938007498 EamA-like transporter family; Region: EamA; pfam00892 1280938007499 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1280938007500 dimer interface [polypeptide binding]; other site 1280938007501 FMN binding site [chemical binding]; other site 1280938007502 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 1280938007503 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1280938007504 Di-iron ligands [ion binding]; other site 1280938007505 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1280938007506 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 1280938007507 dimerization interface [polypeptide binding]; other site 1280938007508 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938007509 dimer interface [polypeptide binding]; other site 1280938007510 putative CheW interface [polypeptide binding]; other site 1280938007511 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1280938007512 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938007513 active site 1280938007514 phosphorylation site [posttranslational modification] 1280938007515 intermolecular recognition site; other site 1280938007516 dimerization interface [polypeptide binding]; other site 1280938007517 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938007518 Zn2+ binding site [ion binding]; other site 1280938007519 Mg2+ binding site [ion binding]; other site 1280938007520 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 1280938007521 ATP binding site [chemical binding]; other site 1280938007522 Mg2+ binding site [ion binding]; other site 1280938007523 G-X-G motif; other site 1280938007524 PA-IL-like protein; Region: PA-IL; pfam07828 1280938007525 GAF domain; Region: GAF; pfam01590 1280938007526 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1280938007527 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938007528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938007529 metal binding site [ion binding]; metal-binding site 1280938007530 active site 1280938007531 I-site; other site 1280938007532 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 1280938007533 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1280938007534 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1280938007535 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 1280938007536 S-adenosylmethionine binding site [chemical binding]; other site 1280938007537 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1280938007538 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1280938007539 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1280938007540 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 1280938007541 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1280938007542 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 1280938007543 dimerization interface [polypeptide binding]; other site 1280938007544 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938007545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938007546 dimer interface [polypeptide binding]; other site 1280938007547 putative CheW interface [polypeptide binding]; other site 1280938007548 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1280938007549 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1280938007550 MgtC family; Region: MgtC; pfam02308 1280938007551 AMP-binding domain protein; Validated; Region: PRK08315 1280938007552 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938007553 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1280938007554 acyl-activating enzyme (AAE) consensus motif; other site 1280938007555 putative AMP binding site [chemical binding]; other site 1280938007556 putative active site [active] 1280938007557 putative CoA binding site [chemical binding]; other site 1280938007558 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938007559 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938007560 SurA N-terminal domain; Region: SurA_N; pfam09312 1280938007561 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007562 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1280938007563 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938007564 acyl-activating enzyme (AAE) consensus motif; other site 1280938007565 AMP binding site [chemical binding]; other site 1280938007566 active site 1280938007567 CoA binding site [chemical binding]; other site 1280938007568 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1280938007569 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1280938007570 NAD binding site [chemical binding]; other site 1280938007571 homodimer interface [polypeptide binding]; other site 1280938007572 homotetramer interface [polypeptide binding]; other site 1280938007573 active site 1280938007574 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1280938007575 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 1280938007576 dimer interface [polypeptide binding]; other site 1280938007577 active site 1280938007578 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938007579 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938007580 active site 1280938007581 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1280938007582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007583 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 1280938007584 substrate binding pocket [chemical binding]; other site 1280938007585 dimerization interface [polypeptide binding]; other site 1280938007586 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938007587 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1280938007588 FAD binding site [chemical binding]; other site 1280938007589 substrate binding site [chemical binding]; other site 1280938007590 catalytic base [active] 1280938007591 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1280938007592 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1280938007593 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1280938007594 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938007595 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938007596 ligand binding site [chemical binding]; other site 1280938007597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007598 LysR family transcriptional regulator; Provisional; Region: PRK14997 1280938007599 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 1280938007600 putative effector binding pocket; other site 1280938007601 dimerization interface [polypeptide binding]; other site 1280938007602 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 1280938007603 dimer interface [polypeptide binding]; other site 1280938007604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938007605 metal binding site [ion binding]; metal-binding site 1280938007606 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 1280938007607 putative catalytic site [active] 1280938007608 putative phosphate binding site [ion binding]; other site 1280938007609 active site 1280938007610 metal binding site A [ion binding]; metal-binding site 1280938007611 DNA binding site [nucleotide binding] 1280938007612 putative AP binding site [nucleotide binding]; other site 1280938007613 putative metal binding site B [ion binding]; other site 1280938007614 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1280938007615 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1280938007616 Coenzyme A binding pocket [chemical binding]; other site 1280938007617 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1280938007618 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1280938007619 Surface antigen; Region: Bac_surface_Ag; pfam01103 1280938007620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1280938007621 Family of unknown function (DUF490); Region: DUF490; pfam04357 1280938007622 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1280938007623 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1280938007624 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938007625 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1280938007626 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 1280938007627 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1280938007628 active site 1280938007629 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 1280938007630 active site 1280938007631 catalytic residues [active] 1280938007632 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1280938007633 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1280938007634 putative acyl-acceptor binding pocket; other site 1280938007635 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1280938007636 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1280938007637 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 1280938007638 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938007639 active site 1280938007640 catalytic tetrad [active] 1280938007641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007642 LysR family transcriptional regulator; Provisional; Region: PRK14997 1280938007643 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 1280938007644 putative effector binding pocket; other site 1280938007645 putative dimerization interface [polypeptide binding]; other site 1280938007646 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1280938007647 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1280938007648 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 1280938007649 dimer interface [polypeptide binding]; other site 1280938007650 catalytic triad [active] 1280938007651 peroxidatic and resolving cysteines [active] 1280938007652 putative aminotransferase; Provisional; Region: PRK09105 1280938007653 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 1280938007654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938007655 homodimer interface [polypeptide binding]; other site 1280938007656 catalytic residue [active] 1280938007657 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1280938007658 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1280938007659 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938007660 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938007661 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938007662 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1280938007663 Protein export membrane protein; Region: SecD_SecF; cl14618 1280938007664 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 1280938007665 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1280938007666 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1280938007667 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 1280938007668 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1280938007669 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 1280938007670 dimerization interface [polypeptide binding]; other site 1280938007671 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 1280938007672 dimer interface [polypeptide binding]; other site 1280938007673 phosphorylation site [posttranslational modification] 1280938007674 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 1280938007675 ATP binding site [chemical binding]; other site 1280938007676 Mg2+ binding site [ion binding]; other site 1280938007677 G-X-G motif; other site 1280938007678 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1280938007679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938007680 active site 1280938007681 phosphorylation site [posttranslational modification] 1280938007682 intermolecular recognition site; other site 1280938007683 dimerization interface [polypeptide binding]; other site 1280938007684 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 1280938007685 DNA binding site [nucleotide binding] 1280938007686 Outer membrane efflux protein; Region: OEP; pfam02321 1280938007687 Outer membrane efflux protein; Region: OEP; pfam02321 1280938007688 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938007689 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1280938007690 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938007691 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1280938007692 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938007693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007694 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938007695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007696 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1280938007697 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 1280938007698 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1280938007699 putative alpha subunit interface [polypeptide binding]; other site 1280938007700 putative active site [active] 1280938007701 putative substrate binding site [chemical binding]; other site 1280938007702 Fe binding site [ion binding]; other site 1280938007703 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1280938007704 inter-subunit interface; other site 1280938007705 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1280938007706 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 1280938007707 catalytic loop [active] 1280938007708 iron binding site [ion binding]; other site 1280938007709 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1280938007710 FAD binding pocket [chemical binding]; other site 1280938007711 FAD binding motif [chemical binding]; other site 1280938007712 phosphate binding motif [ion binding]; other site 1280938007713 beta-alpha-beta structure motif; other site 1280938007714 NAD binding pocket [chemical binding]; other site 1280938007715 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1280938007716 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1280938007717 putative NAD(P) binding site [chemical binding]; other site 1280938007718 active site 1280938007719 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1280938007720 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 1280938007721 catalytic loop [active] 1280938007722 iron binding site [ion binding]; other site 1280938007723 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1280938007724 FAD binding pocket [chemical binding]; other site 1280938007725 FAD binding motif [chemical binding]; other site 1280938007726 phosphate binding motif [ion binding]; other site 1280938007727 beta-alpha-beta structure motif; other site 1280938007728 NAD binding pocket [chemical binding]; other site 1280938007729 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1280938007730 inter-subunit interface; other site 1280938007731 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 1280938007732 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 1280938007733 [2Fe-2S] cluster binding site [ion binding]; other site 1280938007734 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1280938007735 putative alpha subunit interface [polypeptide binding]; other site 1280938007736 putative active site [active] 1280938007737 putative substrate binding site [chemical binding]; other site 1280938007738 Fe binding site [ion binding]; other site 1280938007739 chaperone protein DnaK; Region: prok_dnaK; TIGR02350 1280938007740 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938007741 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1280938007742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007743 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 1280938007744 dimerization interface [polypeptide binding]; other site 1280938007745 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1280938007746 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1280938007747 octamer interface [polypeptide binding]; other site 1280938007748 active site 1280938007749 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CatC1; COG4829 1280938007750 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1280938007751 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1280938007752 dimer interface [polypeptide binding]; other site 1280938007753 active site 1280938007754 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938007755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 1280938007756 Leucine rich repeat; Region: LRR_8; pfam13855 1280938007757 Leucine rich repeat; Region: LRR_8; pfam13855 1280938007758 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1280938007759 active site 1280938007760 ATP binding site [chemical binding]; other site 1280938007761 substrate binding site [chemical binding]; other site 1280938007762 activation loop (A-loop); other site 1280938007763 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1280938007764 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 1280938007765 putative substrate translocation pore; other site 1280938007766 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 1280938007767 nucleoside/Zn binding site; other site 1280938007768 dimer interface [polypeptide binding]; other site 1280938007769 catalytic motif [active] 1280938007770 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1280938007771 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1280938007772 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1280938007773 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1280938007774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007775 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 1280938007776 dimerization interface [polypeptide binding]; other site 1280938007777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1280938007778 DinB superfamily; Region: DinB_2; pfam12867 1280938007779 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1280938007780 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1280938007781 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938007782 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938007783 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938007784 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1280938007785 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1280938007786 putative NAD(P) binding site [chemical binding]; other site 1280938007787 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1280938007788 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938007789 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938007790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007791 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938007792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938007793 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938007794 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938007795 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1280938007796 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1280938007797 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1280938007798 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1280938007799 Cytochrome c; Region: Cytochrom_C; cl11414 1280938007800 Cytochrome c [Energy production and conversion]; Region: COG3258 1280938007801 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938007802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938007803 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 1280938007804 dimer interface [polypeptide binding]; other site 1280938007805 phosphorylation site [posttranslational modification] 1280938007806 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 1280938007807 ATP binding site [chemical binding]; other site 1280938007808 G-X-G motif; other site 1280938007809 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1280938007810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938007811 active site 1280938007812 phosphorylation site [posttranslational modification] 1280938007813 intermolecular recognition site; other site 1280938007814 dimerization interface [polypeptide binding]; other site 1280938007815 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 1280938007816 DNA binding site [nucleotide binding] 1280938007817 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1280938007818 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1280938007819 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 1280938007820 DsbD alpha interface [polypeptide binding]; other site 1280938007821 catalytic residues [active] 1280938007822 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1280938007823 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 1280938007824 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1280938007825 catalytic residues [active] 1280938007826 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1280938007827 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 1280938007828 dimerization domain [polypeptide binding]; other site 1280938007829 dimer interface [polypeptide binding]; other site 1280938007830 catalytic residues [active] 1280938007831 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1280938007832 Cytochrome P450; Region: p450; cl12078 1280938007833 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1280938007834 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 1280938007835 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1280938007836 C-terminal domain interface [polypeptide binding]; other site 1280938007837 GSH binding site (G-site) [chemical binding]; other site 1280938007838 putative dimer interface [polypeptide binding]; other site 1280938007839 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1280938007840 dimer interface [polypeptide binding]; other site 1280938007841 N-terminal domain interface [polypeptide binding]; other site 1280938007842 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1280938007843 benzoate transport; Region: 2A0115; TIGR00895 1280938007844 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 1280938007845 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 1280938007846 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 1280938007847 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1280938007848 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 1280938007849 Cupin domain; Region: Cupin_2; pfam07883 1280938007850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007851 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1280938007852 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 1280938007853 dimerization interface [polypeptide binding]; other site 1280938007854 RNA polymerase sigma factor; Provisional; Region: PRK12528 1280938007855 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938007856 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 1280938007857 DNA binding residues [nucleotide binding] 1280938007858 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938007859 FecR protein; Region: FecR; pfam04773 1280938007860 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938007861 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1280938007862 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 1280938007863 N-terminal plug; other site 1280938007864 ligand-binding site [chemical binding]; other site 1280938007865 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1280938007866 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1280938007867 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1280938007868 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1280938007869 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1280938007870 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1280938007871 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 1280938007872 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 1280938007873 RHS Repeat; Region: RHS_repeat; pfam05593 1280938007874 RHS Repeat; Region: RHS_repeat; pfam05593 1280938007875 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1280938007876 RHS Repeat; Region: RHS_repeat; pfam05593 1280938007877 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1280938007878 RHS Repeat; Region: RHS_repeat; pfam05593 1280938007879 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1280938007880 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1280938007881 RHS Repeat; Region: RHS_repeat; pfam05593 1280938007882 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1280938007883 RHS Repeat; Region: RHS_repeat; cl11982 1280938007884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938007885 Coenzyme A binding pocket [chemical binding]; other site 1280938007886 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938007887 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 1280938007888 S-adenosylmethionine binding site [chemical binding]; other site 1280938007889 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1280938007890 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1280938007891 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1280938007892 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1280938007893 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1280938007894 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1280938007895 putative aromatic amino acid binding site; other site 1280938007896 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 1280938007897 Walker A motif; other site 1280938007898 ATP binding site [chemical binding]; other site 1280938007899 Walker B motif; other site 1280938007900 arginine finger; other site 1280938007901 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1280938007902 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 1280938007903 active site 1280938007904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938007905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007906 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 1280938007907 dimerization interface [polypeptide binding]; other site 1280938007908 putative effector binding pocket; other site 1280938007909 glycine cleavage system protein H; Provisional; Region: PRK13380 1280938007910 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 1280938007911 lipoyl attachment site [posttranslational modification]; other site 1280938007912 glycine dehydrogenase; Provisional; Region: PRK05367 1280938007913 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 1280938007914 tetramer interface [polypeptide binding]; other site 1280938007915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938007916 catalytic residue [active] 1280938007917 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 1280938007918 tetramer interface [polypeptide binding]; other site 1280938007919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938007920 catalytic residue [active] 1280938007921 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1280938007922 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 1280938007923 dimer interface [polypeptide binding]; other site 1280938007924 active site 1280938007925 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1280938007926 folate binding site [chemical binding]; other site 1280938007927 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1280938007928 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1280938007929 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1280938007930 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1280938007931 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1280938007932 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The...; Region: SANT; cl17250 1280938007933 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1280938007934 putative active site [active] 1280938007935 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1280938007936 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 1280938007937 HflC protein; Region: hflC; TIGR01932 1280938007938 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1280938007939 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 1280938007940 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1280938007941 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1280938007942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938007943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007944 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 1280938007945 putative effector binding pocket; other site 1280938007946 dimerization interface [polypeptide binding]; other site 1280938007947 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1280938007948 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1280938007949 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 1280938007950 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1280938007951 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938007952 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938007953 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1280938007954 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1280938007955 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938007956 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 1280938007957 DNA binding residues [nucleotide binding] 1280938007958 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1280938007959 peptide synthase; Validated; Region: PRK05691 1280938007960 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1280938007961 acyl-activating enzyme (AAE) consensus motif; other site 1280938007962 active site 1280938007963 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938007964 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938007965 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938007966 acyl-activating enzyme (AAE) consensus motif; other site 1280938007967 AMP binding site [chemical binding]; other site 1280938007968 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938007969 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938007970 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938007971 acyl-activating enzyme (AAE) consensus motif; other site 1280938007972 AMP binding site [chemical binding]; other site 1280938007973 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938007974 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1280938007975 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938007976 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938007977 acyl-activating enzyme (AAE) consensus motif; other site 1280938007978 AMP binding site [chemical binding]; other site 1280938007979 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938007980 Prophage antirepressor [Transcription]; Region: COG3617 1280938007981 BRO family, N-terminal domain; Region: Bro-N; smart01040 1280938007982 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1280938007983 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938007984 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938007985 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 1280938007986 catalytic triad [active] 1280938007987 dimer interface [polypeptide binding]; other site 1280938007988 conserved cis-peptide bond; other site 1280938007989 Pirin-related protein [General function prediction only]; Region: COG1741 1280938007990 Pirin; Region: Pirin; pfam02678 1280938007991 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1280938007992 LysR family transcriptional regulator; Provisional; Region: PRK14997 1280938007993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938007994 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1280938007995 putative effector binding pocket; other site 1280938007996 putative dimerization interface [polypeptide binding]; other site 1280938007997 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1280938007998 trehalase; Provisional; Region: treA; PRK13272 1280938007999 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1280938008000 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1280938008001 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1280938008002 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 1280938008003 inhibitor-cofactor binding pocket; inhibition site 1280938008004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938008005 catalytic residue [active] 1280938008006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1280938008007 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1280938008008 Serine hydrolase; Region: Ser_hydrolase; cl17834 1280938008009 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1280938008010 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 1280938008011 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1280938008012 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 1280938008013 ABC-ATPase subunit interface; other site 1280938008014 dimer interface [polypeptide binding]; other site 1280938008015 putative PBP binding regions; other site 1280938008016 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1280938008017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938008018 Walker A/P-loop; other site 1280938008019 ATP binding site [chemical binding]; other site 1280938008020 Q-loop/lid; other site 1280938008021 ABC transporter signature motif; other site 1280938008022 Walker B; other site 1280938008023 D-loop; other site 1280938008024 H-loop/switch region; other site 1280938008025 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 1280938008026 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1280938008027 intersubunit interface [polypeptide binding]; other site 1280938008028 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1280938008029 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1280938008030 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1280938008031 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1280938008032 peptide synthase; Provisional; Region: PRK12316 1280938008033 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938008034 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008035 acyl-activating enzyme (AAE) consensus motif; other site 1280938008036 AMP binding site [chemical binding]; other site 1280938008037 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008038 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1280938008039 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008040 acyl-activating enzyme (AAE) consensus motif; other site 1280938008041 AMP binding site [chemical binding]; other site 1280938008042 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008043 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938008044 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008045 acyl-activating enzyme (AAE) consensus motif; other site 1280938008046 AMP binding site [chemical binding]; other site 1280938008047 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008048 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1280938008049 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008050 acyl-activating enzyme (AAE) consensus motif; other site 1280938008051 AMP binding site [chemical binding]; other site 1280938008052 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008053 Condensation domain; Region: Condensation; pfam00668 1280938008054 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938008055 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938008056 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008057 acyl-activating enzyme (AAE) consensus motif; other site 1280938008058 AMP binding site [chemical binding]; other site 1280938008059 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008060 Condensation domain; Region: Condensation; pfam00668 1280938008061 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938008062 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938008063 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008064 acyl-activating enzyme (AAE) consensus motif; other site 1280938008065 AMP binding site [chemical binding]; other site 1280938008066 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008067 Condensation domain; Region: Condensation; pfam00668 1280938008068 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938008069 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938008070 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008071 acyl-activating enzyme (AAE) consensus motif; other site 1280938008072 AMP binding site [chemical binding]; other site 1280938008073 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008074 Condensation domain; Region: Condensation; pfam00668 1280938008075 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938008076 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938008077 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008078 acyl-activating enzyme (AAE) consensus motif; other site 1280938008079 AMP binding site [chemical binding]; other site 1280938008080 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008081 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1280938008082 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938008083 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1280938008084 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 1280938008085 N-terminal plug; other site 1280938008086 ligand-binding site [chemical binding]; other site 1280938008087 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1280938008088 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938008089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938008090 Walker A/P-loop; other site 1280938008091 ATP binding site [chemical binding]; other site 1280938008092 Q-loop/lid; other site 1280938008093 ABC transporter signature motif; other site 1280938008094 Walker B; other site 1280938008095 D-loop; other site 1280938008096 H-loop/switch region; other site 1280938008097 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1280938008098 catalytic site [active] 1280938008099 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1280938008100 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1280938008101 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1280938008102 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 1280938008103 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938008104 catalytic residue [active] 1280938008105 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1280938008106 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 1280938008107 active site 1280938008108 dimer interface [polypeptide binding]; other site 1280938008109 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1280938008110 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1280938008111 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1280938008112 Walker A/P-loop; other site 1280938008113 ATP binding site [chemical binding]; other site 1280938008114 Q-loop/lid; other site 1280938008115 ABC transporter signature motif; other site 1280938008116 Walker B; other site 1280938008117 D-loop; other site 1280938008118 H-loop/switch region; other site 1280938008119 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1280938008120 FtsX-like permease family; Region: FtsX; pfam02687 1280938008121 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1280938008122 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938008123 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938008124 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938008125 FecR protein; Region: FecR; pfam04773 1280938008126 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1280938008127 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 1280938008128 DNA binding residues [nucleotide binding] 1280938008129 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 1280938008130 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938008131 Penicillin amidase; Region: Penicil_amidase; pfam01804 1280938008132 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 1280938008133 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 1280938008134 active site 1280938008135 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 1280938008136 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1280938008137 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938008138 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008139 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 1280938008140 dimerization interface [polypeptide binding]; other site 1280938008141 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 1280938008142 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1280938008143 phosphate binding site [ion binding]; other site 1280938008144 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1280938008145 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1280938008146 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 1280938008147 catalytic loop [active] 1280938008148 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 1280938008149 iron binding site [ion binding]; other site 1280938008150 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1280938008151 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1280938008152 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938008153 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1280938008154 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938008155 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938008156 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938008157 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938008158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938008159 active site 1280938008160 phosphorylation site [posttranslational modification] 1280938008161 intermolecular recognition site; other site 1280938008162 dimerization interface [polypeptide binding]; other site 1280938008163 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 1280938008164 DNA binding residues [nucleotide binding] 1280938008165 dimerization interface [polypeptide binding]; other site 1280938008166 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 1280938008167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1280938008168 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938008169 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938008170 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938008171 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1280938008172 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1280938008173 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 1280938008174 Walker A motif; other site 1280938008175 ATP binding site [chemical binding]; other site 1280938008176 Walker B motif; other site 1280938008177 arginine finger; other site 1280938008178 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 1280938008179 Walker A motif; other site 1280938008180 ATP binding site [chemical binding]; other site 1280938008181 Walker B motif; other site 1280938008182 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1280938008183 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1280938008184 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1280938008185 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1280938008186 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 1280938008187 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1280938008188 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1280938008189 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1280938008190 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 1280938008191 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1280938008192 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1280938008193 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1280938008194 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1280938008195 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1280938008196 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1280938008197 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 1280938008198 Walker A motif; other site 1280938008199 ATP binding site [chemical binding]; other site 1280938008200 Walker B motif; other site 1280938008201 arginine finger; other site 1280938008202 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1280938008203 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 1280938008204 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938008205 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1280938008206 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 1280938008207 active site 1280938008208 dimer interface [polypeptide binding]; other site 1280938008209 non-prolyl cis peptide bond; other site 1280938008210 insertion regions; other site 1280938008211 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1280938008212 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1280938008213 Flavin binding site [chemical binding]; other site 1280938008214 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1280938008215 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 1280938008216 Walker A motif; other site 1280938008217 ATP binding site [chemical binding]; other site 1280938008218 Walker B motif; other site 1280938008219 arginine finger; other site 1280938008220 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1280938008221 Predicted ATPase [General function prediction only]; Region: COG1485 1280938008222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938008223 Walker B; other site 1280938008224 D-loop; other site 1280938008225 H-loop/switch region; other site 1280938008226 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1280938008227 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 1280938008228 active site 1280938008229 catalytic site [active] 1280938008230 metal binding site [ion binding]; metal-binding site 1280938008231 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 1280938008232 dimer interface [polypeptide binding]; other site 1280938008233 conserved gate region; other site 1280938008234 ABC-ATPase subunit interface; other site 1280938008235 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1280938008236 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1280938008237 Walker A/P-loop; other site 1280938008238 ATP binding site [chemical binding]; other site 1280938008239 Q-loop/lid; other site 1280938008240 ABC transporter signature motif; other site 1280938008241 Walker B; other site 1280938008242 D-loop; other site 1280938008243 H-loop/switch region; other site 1280938008244 NIL domain; Region: NIL; pfam09383 1280938008245 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1280938008246 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1280938008247 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1280938008248 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 1280938008249 active site 1280938008250 non-prolyl cis peptide bond; other site 1280938008251 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1280938008252 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938008253 active site 1280938008254 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1280938008255 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938008256 active site 1280938008257 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1280938008258 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 1280938008259 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1280938008260 putative substrate binding site [chemical binding]; other site 1280938008261 putative ATP binding site [chemical binding]; other site 1280938008262 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 1280938008263 N- and C-terminal domain interface [polypeptide binding]; other site 1280938008264 D-xylulose kinase; Region: XylB; TIGR01312 1280938008265 active site 1280938008266 MgATP binding site [chemical binding]; other site 1280938008267 catalytic site [active] 1280938008268 metal binding site [ion binding]; metal-binding site 1280938008269 xylulose binding site [chemical binding]; other site 1280938008270 putative homodimer interface [polypeptide binding]; other site 1280938008271 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1280938008272 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1280938008273 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1280938008274 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1280938008275 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1280938008276 Walker A/P-loop; other site 1280938008277 ATP binding site [chemical binding]; other site 1280938008278 Q-loop/lid; other site 1280938008279 ABC transporter signature motif; other site 1280938008280 Walker B; other site 1280938008281 D-loop; other site 1280938008282 H-loop/switch region; other site 1280938008283 TOBE domain; Region: TOBE_2; pfam08402 1280938008284 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1280938008285 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 1280938008286 dimer interface [polypeptide binding]; other site 1280938008287 conserved gate region; other site 1280938008288 ABC-ATPase subunit interface; other site 1280938008289 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 1280938008290 dimer interface [polypeptide binding]; other site 1280938008291 conserved gate region; other site 1280938008292 putative PBP binding loops; other site 1280938008293 ABC-ATPase subunit interface; other site 1280938008294 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1280938008295 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1280938008296 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938008297 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938008298 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938008299 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1280938008300 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1280938008301 substrate binding site [chemical binding]; other site 1280938008302 activation loop (A-loop); other site 1280938008303 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938008304 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 1280938008305 N-terminal plug; other site 1280938008306 ligand-binding site [chemical binding]; other site 1280938008307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938008308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008309 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938008310 dimerization interface [polypeptide binding]; other site 1280938008311 Sulfatase; Region: Sulfatase; cl17466 1280938008312 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1280938008313 Cupin; Region: Cupin_6; pfam12852 1280938008314 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938008315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938008316 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1280938008317 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1280938008318 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938008319 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938008320 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1280938008321 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1280938008322 Walker A/P-loop; other site 1280938008323 ATP binding site [chemical binding]; other site 1280938008324 Q-loop/lid; other site 1280938008325 ABC transporter signature motif; other site 1280938008326 Walker B; other site 1280938008327 D-loop; other site 1280938008328 H-loop/switch region; other site 1280938008329 NMT1-like family; Region: NMT1_2; pfam13379 1280938008330 NMT1/THI5 like; Region: NMT1; pfam09084 1280938008331 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1280938008332 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 1280938008333 dimer interface [polypeptide binding]; other site 1280938008334 conserved gate region; other site 1280938008335 putative PBP binding loops; other site 1280938008336 ABC-ATPase subunit interface; other site 1280938008337 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1280938008338 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 1280938008339 active site 1280938008340 non-prolyl cis peptide bond; other site 1280938008341 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1280938008342 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1280938008343 Flavin binding site [chemical binding]; other site 1280938008344 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1280938008345 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1280938008346 Flavin binding site [chemical binding]; other site 1280938008347 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1280938008348 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1280938008349 tetrameric interface [polypeptide binding]; other site 1280938008350 activator binding site; other site 1280938008351 NADP binding site [chemical binding]; other site 1280938008352 substrate binding site [chemical binding]; other site 1280938008353 catalytic residues [active] 1280938008354 GntP family permease; Region: GntP_permease; pfam02447 1280938008355 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1280938008356 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 1280938008357 AAA domain; Region: AAA_33; pfam13671 1280938008358 ATP-binding site [chemical binding]; other site 1280938008359 Gluconate-6-phosphate binding site [chemical binding]; other site 1280938008360 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1280938008361 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1280938008362 DNA binding site [nucleotide binding] 1280938008363 domain linker motif; other site 1280938008364 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 1280938008365 putative ligand binding site [chemical binding]; other site 1280938008366 putative dimerization interface [polypeptide binding]; other site 1280938008367 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1280938008368 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938008369 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938008370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938008371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008372 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 1280938008373 putative dimerization interface [polypeptide binding]; other site 1280938008374 putative effector binding pocket; other site 1280938008375 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1280938008376 Beta-lactamase; Region: Beta-lactamase; pfam00144 1280938008377 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1280938008378 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 1280938008379 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1280938008380 non-specific DNA binding site [nucleotide binding]; other site 1280938008381 salt bridge; other site 1280938008382 sequence-specific DNA binding site [nucleotide binding]; other site 1280938008383 Cupin domain; Region: Cupin_2; pfam07883 1280938008384 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1280938008385 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1280938008386 active site 1280938008387 iron coordination sites [ion binding]; other site 1280938008388 substrate binding pocket [chemical binding]; other site 1280938008389 NMT1-like family; Region: NMT1_2; pfam13379 1280938008390 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1280938008391 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1280938008392 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1280938008393 Walker A/P-loop; other site 1280938008394 ATP binding site [chemical binding]; other site 1280938008395 Q-loop/lid; other site 1280938008396 ABC transporter signature motif; other site 1280938008397 Walker B; other site 1280938008398 D-loop; other site 1280938008399 H-loop/switch region; other site 1280938008400 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1280938008401 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 1280938008402 putative PBP binding loops; other site 1280938008403 ABC-ATPase subunit interface; other site 1280938008404 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938008405 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 1280938008406 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1280938008407 acyl-activating enzyme (AAE) consensus motif; other site 1280938008408 AMP binding site [chemical binding]; other site 1280938008409 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008410 Condensation domain; Region: Condensation; pfam00668 1280938008411 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938008412 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1280938008413 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1280938008414 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1280938008415 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1280938008416 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1280938008417 acyl-activating enzyme (AAE) consensus motif; other site 1280938008418 AMP binding site [chemical binding]; other site 1280938008419 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1280938008420 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938008421 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1280938008422 Condensation domain; Region: Condensation; pfam00668 1280938008423 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1280938008424 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1280938008425 PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's...; Region: PA2301; cd04939 1280938008426 putative deacylase active site [active] 1280938008427 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 1280938008428 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 1280938008429 putative active site [active] 1280938008430 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1280938008431 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1280938008432 Interdomain contacts; other site 1280938008433 Cytokine receptor motif; other site 1280938008434 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 1280938008435 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1280938008436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938008437 DNA-binding site [nucleotide binding]; DNA binding site 1280938008438 UTRA domain; Region: UTRA; pfam07702 1280938008439 putative oxidoreductase; Provisional; Region: PRK08275 1280938008440 L-aspartate oxidase; Provisional; Region: PRK06175 1280938008441 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1280938008442 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1280938008443 HEAT repeats; Region: HEAT_2; pfam13646 1280938008444 HEAT repeats; Region: HEAT_2; pfam13646 1280938008445 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 1280938008446 Protein of unknown function (DUF971); Region: DUF971; cl01414 1280938008447 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1280938008448 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1280938008449 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1280938008450 Trp docking motif [polypeptide binding]; other site 1280938008451 putative active site [active] 1280938008452 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938008453 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 1280938008454 N-terminal plug; other site 1280938008455 ligand-binding site [chemical binding]; other site 1280938008456 Peptidase family M48; Region: Peptidase_M48; cl12018 1280938008457 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1280938008458 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1280938008459 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938008460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938008461 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1280938008462 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938008463 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1280938008464 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1280938008465 active site 1280938008466 arsenical pump membrane protein; Provisional; Region: PRK15445 1280938008467 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1280938008468 transmembrane helices; other site 1280938008469 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 1280938008470 dimerization interface [polypeptide binding]; other site 1280938008471 putative DNA binding site [nucleotide binding]; other site 1280938008472 putative Zn2+ binding site [ion binding]; other site 1280938008473 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1280938008474 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938008475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938008476 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1280938008477 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1280938008478 putative NAD(P) binding site [chemical binding]; other site 1280938008479 putative substrate binding site [chemical binding]; other site 1280938008480 catalytic Zn binding site [ion binding]; other site 1280938008481 structural Zn binding site [ion binding]; other site 1280938008482 dimer interface [polypeptide binding]; other site 1280938008483 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1280938008484 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1280938008485 DNA binding residues [nucleotide binding] 1280938008486 dimer interface [polypeptide binding]; other site 1280938008487 [2Fe-2S] cluster binding site [ion binding]; other site 1280938008488 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1280938008489 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1280938008490 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1280938008491 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938008492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938008493 Coenzyme A binding pocket [chemical binding]; other site 1280938008494 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938008495 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938008496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938008497 hypothetical protein; Validated; Region: PRK06186 1280938008498 conserved cys residue [active] 1280938008499 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1280938008500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938008501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008502 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 1280938008503 dimerization interface [polypeptide binding]; other site 1280938008504 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938008505 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938008506 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938008507 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1280938008508 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1280938008509 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1280938008510 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1280938008511 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1280938008512 dimerization interface [polypeptide binding]; other site 1280938008513 ligand binding site [chemical binding]; other site 1280938008514 NADP binding site [chemical binding]; other site 1280938008515 catalytic site [active] 1280938008516 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 1280938008517 D-galactonate transporter; Region: 2A0114; TIGR00893 1280938008518 putative substrate translocation pore; other site 1280938008519 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1280938008520 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1280938008521 substrate binding site [chemical binding]; other site 1280938008522 ATP binding site [chemical binding]; other site 1280938008523 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1280938008524 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1280938008525 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1280938008526 DNA binding site [nucleotide binding] 1280938008527 domain linker motif; other site 1280938008528 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1280938008529 putative dimerization interface [polypeptide binding]; other site 1280938008530 putative ligand binding site [chemical binding]; other site 1280938008531 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938008532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008533 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 1280938008534 putative effector binding pocket; other site 1280938008535 dimerization interface [polypeptide binding]; other site 1280938008536 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1280938008537 Cytochrome c; Region: Cytochrom_C; cl11414 1280938008538 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 1280938008539 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1280938008540 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1280938008541 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 1280938008542 substrate binding pocket [chemical binding]; other site 1280938008543 active site 1280938008544 iron coordination sites [ion binding]; other site 1280938008545 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 1280938008546 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 1280938008547 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1280938008548 active site 1280938008549 homodimer interface [polypeptide binding]; other site 1280938008550 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1280938008551 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1280938008552 Helix-turn-helix domain; Region: HTH_19; pfam12844 1280938008553 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1280938008554 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938008555 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1280938008556 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1280938008557 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 1280938008558 E3 interaction surface; other site 1280938008559 lipoyl attachment site [posttranslational modification]; other site 1280938008560 e3 binding domain; Region: E3_binding; pfam02817 1280938008561 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1280938008562 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1280938008563 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 1280938008564 alpha subunit interface [polypeptide binding]; other site 1280938008565 TPP binding site [chemical binding]; other site 1280938008566 heterodimer interface [polypeptide binding]; other site 1280938008567 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1280938008568 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1280938008569 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1280938008570 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 1280938008571 tetramer interface [polypeptide binding]; other site 1280938008572 TPP-binding site [chemical binding]; other site 1280938008573 heterodimer interface [polypeptide binding]; other site 1280938008574 phosphorylation loop region [posttranslational modification] 1280938008575 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938008576 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 1280938008577 putative DNA binding site [nucleotide binding]; other site 1280938008578 putative Zn2+ binding site [ion binding]; other site 1280938008579 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938008580 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1280938008581 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 1280938008582 active site 1280938008583 DNA binding site [nucleotide binding] 1280938008584 Int/Topo IB signature motif; other site 1280938008585 catalytic residues [active] 1280938008586 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1280938008587 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1280938008588 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1280938008589 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1280938008590 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1280938008591 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938008592 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 1280938008593 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 1280938008594 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1280938008595 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 1280938008596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938008597 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 1280938008598 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1280938008599 Chain length determinant protein; Region: Wzz; cl15801 1280938008600 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 1280938008601 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1280938008602 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1280938008603 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1280938008604 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 1280938008605 active site 1280938008606 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1280938008607 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1280938008608 Substrate binding site; other site 1280938008609 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1280938008610 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1280938008611 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1280938008612 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 1280938008613 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938008614 catalytic residue [active] 1280938008615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1280938008616 MOSC domain; Region: MOSC; pfam03473 1280938008617 3-alpha domain; Region: 3-alpha; pfam03475 1280938008618 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1280938008619 classical (c) SDRs; Region: SDR_c; cd05233 1280938008620 NAD(P) binding site [chemical binding]; other site 1280938008621 active site 1280938008622 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1280938008623 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1280938008624 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1280938008625 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1280938008626 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1280938008627 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1280938008628 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1280938008629 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1280938008630 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1280938008631 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1280938008632 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938008633 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938008634 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1280938008635 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938008636 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1280938008637 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1280938008638 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938008639 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1280938008640 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1280938008641 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1280938008642 active site 1280938008643 NAD binding site [chemical binding]; other site 1280938008644 metal binding site [ion binding]; metal-binding site 1280938008645 amino acid transporter; Region: 2A0306; TIGR00909 1280938008646 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1280938008647 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1280938008648 tetrameric interface [polypeptide binding]; other site 1280938008649 NAD binding site [chemical binding]; other site 1280938008650 catalytic residues [active] 1280938008651 substrate binding site [chemical binding]; other site 1280938008652 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1280938008653 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 1280938008654 inhibitor-cofactor binding pocket; inhibition site 1280938008655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938008656 catalytic residue [active] 1280938008657 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1280938008658 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1280938008659 NAD binding site [chemical binding]; other site 1280938008660 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1280938008661 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1280938008662 Na binding site [ion binding]; other site 1280938008663 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1280938008664 acyl-CoA synthetase; Validated; Region: PRK08162 1280938008665 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1280938008666 acyl-activating enzyme (AAE) consensus motif; other site 1280938008667 putative active site [active] 1280938008668 AMP binding site [chemical binding]; other site 1280938008669 putative CoA binding site [chemical binding]; other site 1280938008670 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938008671 classical (c) SDRs; Region: SDR_c; cd05233 1280938008672 NAD(P) binding site [chemical binding]; other site 1280938008673 active site 1280938008674 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938008675 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1280938008676 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1280938008677 active site 1280938008678 Phosphotransferase enzyme family; Region: APH; pfam01636 1280938008679 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 1280938008680 putative active site [active] 1280938008681 putative substrate binding site [chemical binding]; other site 1280938008682 ATP binding site [chemical binding]; other site 1280938008683 Propionate catabolism activator; Region: PrpR_N; pfam06506 1280938008684 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 1280938008685 PAS domain; Region: PAS_9; pfam13426 1280938008686 putative active site [active] 1280938008687 heme pocket [chemical binding]; other site 1280938008688 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1280938008689 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 1280938008690 Walker A motif; other site 1280938008691 ATP binding site [chemical binding]; other site 1280938008692 Walker B motif; other site 1280938008693 arginine finger; other site 1280938008694 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938008695 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1280938008696 mce related protein; Region: MCE; pfam02470 1280938008697 mce related protein; Region: MCE; pfam02470 1280938008698 mce related protein; Region: MCE; pfam02470 1280938008699 mce related protein; Region: MCE; pfam02470 1280938008700 mce related protein; Region: MCE; pfam02470 1280938008701 mce related protein; Region: MCE; pfam02470 1280938008702 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1280938008703 Paraquat-inducible protein A; Region: PqiA; pfam04403 1280938008704 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1280938008705 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1280938008706 dimer interface [polypeptide binding]; other site 1280938008707 NADP binding site [chemical binding]; other site 1280938008708 catalytic residues [active] 1280938008709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1280938008710 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1280938008711 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1280938008712 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 1280938008713 putative active site pocket [active] 1280938008714 putative metal binding site [ion binding]; other site 1280938008715 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1280938008716 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 1280938008717 putative substrate translocation pore; other site 1280938008718 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938008719 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1280938008720 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1280938008721 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1280938008722 Amidohydrolase; Region: Amidohydro_2; pfam04909 1280938008723 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 1280938008724 D-galactonate transporter; Region: 2A0114; TIGR00893 1280938008725 putative substrate translocation pore; other site 1280938008726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1280938008727 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1280938008728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1280938008729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938008730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008731 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 1280938008732 dimerization interface [polypeptide binding]; other site 1280938008733 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938008734 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 1280938008735 substrate binding pocket [chemical binding]; other site 1280938008736 membrane-bound complex binding site; other site 1280938008737 hinge residues; other site 1280938008738 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 1280938008739 dimer interface [polypeptide binding]; other site 1280938008740 conserved gate region; other site 1280938008741 putative PBP binding loops; other site 1280938008742 ABC-ATPase subunit interface; other site 1280938008743 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 1280938008744 dimer interface [polypeptide binding]; other site 1280938008745 conserved gate region; other site 1280938008746 putative PBP binding loops; other site 1280938008747 ABC-ATPase subunit interface; other site 1280938008748 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 1280938008749 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1280938008750 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 1280938008751 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1280938008752 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1280938008753 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1280938008754 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1280938008755 NAD(P) binding site [chemical binding]; other site 1280938008756 substrate binding site [chemical binding]; other site 1280938008757 dimer interface [polypeptide binding]; other site 1280938008758 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938008759 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938008760 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 1280938008761 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938008762 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1280938008763 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1280938008764 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938008765 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1280938008766 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 1280938008767 catalytic loop [active] 1280938008768 iron binding site [ion binding]; other site 1280938008769 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 1280938008770 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1280938008771 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1280938008772 active site 1280938008773 Low affinity iron permease; Region: Iron_permease; pfam04120 1280938008774 carboxylate-amine ligase; Provisional; Region: PRK13515 1280938008775 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1280938008776 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1280938008777 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 1280938008778 S-adenosylmethionine binding site [chemical binding]; other site 1280938008779 Yip1 domain; Region: Yip1; pfam04893 1280938008780 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 1280938008781 PAS domain; Region: PAS_9; pfam13426 1280938008782 putative active site [active] 1280938008783 heme pocket [chemical binding]; other site 1280938008784 PAS domain S-box; Region: sensory_box; TIGR00229 1280938008785 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 1280938008786 putative active site [active] 1280938008787 heme pocket [chemical binding]; other site 1280938008788 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 1280938008789 dimer interface [polypeptide binding]; other site 1280938008790 phosphorylation site [posttranslational modification] 1280938008791 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 1280938008792 ATP binding site [chemical binding]; other site 1280938008793 Mg2+ binding site [ion binding]; other site 1280938008794 G-X-G motif; other site 1280938008795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938008796 active site 1280938008797 phosphorylation site [posttranslational modification] 1280938008798 intermolecular recognition site; other site 1280938008799 dimerization interface [polypeptide binding]; other site 1280938008800 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1280938008801 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1280938008802 metal binding site [ion binding]; metal-binding site 1280938008803 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1280938008804 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1280938008805 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938008806 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1280938008807 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1280938008808 glycogen synthase; Provisional; Region: glgA; PRK00654 1280938008809 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 1280938008810 ADP-binding pocket [chemical binding]; other site 1280938008811 homodimer interface [polypeptide binding]; other site 1280938008812 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 1280938008813 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1280938008814 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1280938008815 catalytic site [active] 1280938008816 active site 1280938008817 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1280938008818 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1280938008819 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1280938008820 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1280938008821 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1280938008822 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1280938008823 active site 1280938008824 catalytic site [active] 1280938008825 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1280938008826 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1280938008827 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 1280938008828 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1280938008829 active site 1280938008830 catalytic site [active] 1280938008831 FOG: CBS domain [General function prediction only]; Region: COG0517 1280938008832 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 1280938008833 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1280938008834 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1280938008835 NAD binding site [chemical binding]; other site 1280938008836 catalytic Zn binding site [ion binding]; other site 1280938008837 structural Zn binding site [ion binding]; other site 1280938008838 Protein of unknown function DUF72; Region: DUF72; pfam01904 1280938008839 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1280938008840 putative catalytic site [active] 1280938008841 putative metal binding site [ion binding]; other site 1280938008842 putative phosphate binding site [ion binding]; other site 1280938008843 cardiolipin synthase 2; Provisional; Region: PRK11263 1280938008844 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1280938008845 putative active site [active] 1280938008846 catalytic site [active] 1280938008847 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1280938008848 putative active site [active] 1280938008849 catalytic site [active] 1280938008850 Predicted integral membrane protein [Function unknown]; Region: COG0392 1280938008851 glycogen branching enzyme; Provisional; Region: PRK05402 1280938008852 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1280938008853 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1280938008854 active site 1280938008855 catalytic site [active] 1280938008856 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1280938008857 trehalose synthase; Region: treS_nterm; TIGR02456 1280938008858 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1280938008859 active site 1280938008860 catalytic site [active] 1280938008861 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1280938008862 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1280938008863 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1280938008864 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1280938008865 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1280938008866 active site 1280938008867 homodimer interface [polypeptide binding]; other site 1280938008868 catalytic site [active] 1280938008869 acceptor binding site [chemical binding]; other site 1280938008870 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1280938008871 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 1280938008872 putative DNA binding site [nucleotide binding]; other site 1280938008873 putative homodimer interface [polypeptide binding]; other site 1280938008874 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1280938008875 MgtC family; Region: MgtC; pfam02308 1280938008876 hydroperoxidase II; Provisional; Region: katE; PRK11249 1280938008877 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1280938008878 tetramer interface [polypeptide binding]; other site 1280938008879 heme binding pocket [chemical binding]; other site 1280938008880 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1280938008881 domain interactions; other site 1280938008882 General stress protein [General function prediction only]; Region: GsiB; COG3729 1280938008883 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 1280938008884 homodimer interface [polypeptide binding]; other site 1280938008885 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1280938008886 active site pocket [active] 1280938008887 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 1280938008888 short chain dehydrogenase; Provisional; Region: PRK06701 1280938008889 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1280938008890 NAD binding site [chemical binding]; other site 1280938008891 metal binding site [ion binding]; metal-binding site 1280938008892 active site 1280938008893 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1280938008894 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 1280938008895 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1280938008896 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1280938008897 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1280938008898 active site 1280938008899 DNA binding site [nucleotide binding] 1280938008900 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 1280938008901 DNA binding site [nucleotide binding] 1280938008902 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 1280938008903 nucleotide binding site [chemical binding]; other site 1280938008904 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1280938008905 active site 1280938008906 phosphorylation site [posttranslational modification] 1280938008907 intermolecular recognition site; other site 1280938008908 dimerization interface [polypeptide binding]; other site 1280938008909 Predicted membrane protein [Function unknown]; Region: COG2323 1280938008910 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1280938008911 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1280938008912 Predicted outer membrane protein [Function unknown]; Region: COG3652 1280938008913 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 1280938008914 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1280938008915 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1280938008916 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1280938008917 Fimbrial protein; Region: Fimbrial; cl01416 1280938008918 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1280938008919 PapC N-terminal domain; Region: PapC_N; pfam13954 1280938008920 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1280938008921 PapC C-terminal domain; Region: PapC_C; pfam13953 1280938008922 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1280938008923 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1280938008924 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1280938008925 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1280938008926 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1280938008927 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 1280938008928 Active Sites [active] 1280938008929 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1280938008930 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1280938008931 ParB-like nuclease domain; Region: ParBc; pfam02195 1280938008932 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1280938008933 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 1280938008934 NAD(P) binding site [chemical binding]; other site 1280938008935 catalytic residues [active] 1280938008936 choline dehydrogenase; Validated; Region: PRK02106 1280938008937 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938008938 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1280938008939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938008940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008941 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 1280938008942 putative effector binding pocket; other site 1280938008943 dimerization interface [polypeptide binding]; other site 1280938008944 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1280938008945 hydrophobic ligand binding site; other site 1280938008946 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1280938008947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008948 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 1280938008949 substrate binding pocket [chemical binding]; other site 1280938008950 dimerization interface [polypeptide binding]; other site 1280938008951 SnoaL-like domain; Region: SnoaL_2; pfam12680 1280938008952 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1280938008953 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1280938008954 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1280938008955 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1280938008956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938008957 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 1280938008958 DNA binding site [nucleotide binding] 1280938008959 active site 1280938008960 hypothetical protein; Provisional; Region: PRK05463 1280938008961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938008962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938008963 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 1280938008964 dimerization interface [polypeptide binding]; other site 1280938008965 benzoate transport; Region: 2A0115; TIGR00895 1280938008966 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 1280938008967 putative substrate translocation pore; other site 1280938008968 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938008969 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1280938008970 putative active site [active] 1280938008971 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1280938008972 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1280938008973 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1280938008974 Predicted outer membrane protein [Function unknown]; Region: COG3652 1280938008975 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1280938008976 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1280938008977 PYR/PP interface [polypeptide binding]; other site 1280938008978 dimer interface [polypeptide binding]; other site 1280938008979 tetramer interface [polypeptide binding]; other site 1280938008980 TPP binding site [chemical binding]; other site 1280938008981 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938008982 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 1280938008983 TPP-binding site [chemical binding]; other site 1280938008984 short chain dehydrogenase; Provisional; Region: PRK08267 1280938008985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938008986 NAD(P) binding site [chemical binding]; other site 1280938008987 active site 1280938008988 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1280938008989 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1280938008990 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1280938008991 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938008992 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938008993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938008994 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938008995 FecR protein; Region: FecR; pfam04773 1280938008996 RNA polymerase sigma factor; Provisional; Region: PRK12525 1280938008997 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938008998 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 1280938008999 DNA binding residues [nucleotide binding] 1280938009000 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1280938009001 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1280938009002 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938009003 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 1280938009004 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 1280938009005 dimer interface [polypeptide binding]; other site 1280938009006 active site 1280938009007 non-prolyl cis peptide bond; other site 1280938009008 insertion regions; other site 1280938009009 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938009010 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938009011 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 1280938009012 N-terminal plug; other site 1280938009013 ligand-binding site [chemical binding]; other site 1280938009014 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 1280938009015 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938009016 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1280938009017 inter-subunit interface; other site 1280938009018 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1280938009019 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 1280938009020 active site 1280938009021 dimer interface [polypeptide binding]; other site 1280938009022 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 1280938009023 Ligand Binding Site [chemical binding]; other site 1280938009024 Molecular Tunnel; other site 1280938009025 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1280938009026 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 1280938009027 [2Fe-2S] cluster binding site [ion binding]; other site 1280938009028 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1280938009029 putative alpha subunit interface [polypeptide binding]; other site 1280938009030 putative active site [active] 1280938009031 putative substrate binding site [chemical binding]; other site 1280938009032 Fe binding site [ion binding]; other site 1280938009033 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938009034 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 1280938009035 putative DNA binding site [nucleotide binding]; other site 1280938009036 putative Zn2+ binding site [ion binding]; other site 1280938009037 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938009038 arylformamidase; Region: trp_arylform; TIGR03035 1280938009039 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1280938009040 kynureninase; Region: kynureninase; TIGR01814 1280938009041 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938009042 catalytic residue [active] 1280938009043 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1280938009044 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938009045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938009046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009047 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938009048 dimerization interface [polypeptide binding]; other site 1280938009049 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1280938009050 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1280938009051 active site 1280938009052 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 1280938009053 PAS domain S-box; Region: sensory_box; TIGR00229 1280938009054 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 1280938009055 putative active site [active] 1280938009056 heme pocket [chemical binding]; other site 1280938009057 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938009058 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938009059 metal binding site [ion binding]; metal-binding site 1280938009060 active site 1280938009061 I-site; other site 1280938009062 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 1280938009063 elongation factor G; Reviewed; Region: PRK00007 1280938009064 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1280938009065 G1 box; other site 1280938009066 putative GEF interaction site [polypeptide binding]; other site 1280938009067 GTP/Mg2+ binding site [chemical binding]; other site 1280938009068 Switch I region; other site 1280938009069 G2 box; other site 1280938009070 G3 box; other site 1280938009071 Switch II region; other site 1280938009072 G4 box; other site 1280938009073 G5 box; other site 1280938009074 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 1280938009075 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 1280938009076 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 1280938009077 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 1280938009078 N-terminal plug; other site 1280938009079 ligand-binding site [chemical binding]; other site 1280938009080 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938009081 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1280938009082 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1280938009083 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1280938009084 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1280938009085 MFS_1 like family; Region: MFS_1_like; pfam12832 1280938009086 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1280938009087 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 1280938009088 motif II; other site 1280938009089 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1280938009090 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 1280938009091 putative active site [active] 1280938009092 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1280938009093 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1280938009094 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1280938009095 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1280938009096 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1280938009097 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: PcoB; COG3667 1280938009098 Uncharacterized conserved protein [Function unknown]; Region: COG3673 1280938009099 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 1280938009100 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1280938009101 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938009102 catalytic residue [active] 1280938009103 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1280938009104 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1280938009105 Walker A/P-loop; other site 1280938009106 ATP binding site [chemical binding]; other site 1280938009107 Q-loop/lid; other site 1280938009108 ABC transporter signature motif; other site 1280938009109 Walker B; other site 1280938009110 D-loop; other site 1280938009111 H-loop/switch region; other site 1280938009112 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1280938009113 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1280938009114 Walker A/P-loop; other site 1280938009115 ATP binding site [chemical binding]; other site 1280938009116 Q-loop/lid; other site 1280938009117 ABC transporter signature motif; other site 1280938009118 Walker B; other site 1280938009119 D-loop; other site 1280938009120 H-loop/switch region; other site 1280938009121 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1280938009122 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1280938009123 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 1280938009124 dimer interface [polypeptide binding]; other site 1280938009125 conserved gate region; other site 1280938009126 ABC-ATPase subunit interface; other site 1280938009127 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1280938009128 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 1280938009129 dimer interface [polypeptide binding]; other site 1280938009130 conserved gate region; other site 1280938009131 ABC-ATPase subunit interface; other site 1280938009132 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1280938009133 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 1280938009134 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938009135 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 1280938009136 N-terminal plug; other site 1280938009137 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938009138 ligand-binding site [chemical binding]; other site 1280938009139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938009140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009141 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 1280938009142 putative effector binding pocket; other site 1280938009143 dimerization interface [polypeptide binding]; other site 1280938009144 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1280938009145 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 1280938009146 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1280938009147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009148 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 1280938009149 dimerization interface [polypeptide binding]; other site 1280938009150 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 1280938009151 active site clefts [active] 1280938009152 zinc binding site [ion binding]; other site 1280938009153 dimer interface [polypeptide binding]; other site 1280938009154 cyanate hydratase; Validated; Region: PRK02866 1280938009155 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1280938009156 oligomer interface [polypeptide binding]; other site 1280938009157 active site 1280938009158 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938009159 FecR protein; Region: FecR; pfam04773 1280938009160 RNA polymerase sigma factor; Provisional; Region: PRK12525 1280938009161 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938009162 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 1280938009163 DNA binding residues [nucleotide binding] 1280938009164 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1280938009165 metal binding site [ion binding]; metal-binding site 1280938009166 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1280938009167 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1280938009168 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1280938009169 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1280938009170 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938009171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938009172 Haemolytic domain; Region: Haemolytic; pfam01809 1280938009173 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1280938009174 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1280938009175 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 1280938009176 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1280938009177 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1280938009178 probable active site [active] 1280938009179 serine/threonine transporter SstT; Provisional; Region: PRK13628 1280938009180 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1280938009181 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1280938009182 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1280938009183 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1280938009184 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938009185 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1280938009186 Predicted membrane protein [Function unknown]; Region: COG4392 1280938009187 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1280938009188 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 1280938009189 thiamine pyrophosphate protein; Validated; Region: PRK08199 1280938009190 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1280938009191 PYR/PP interface [polypeptide binding]; other site 1280938009192 dimer interface [polypeptide binding]; other site 1280938009193 TPP binding site [chemical binding]; other site 1280938009194 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938009195 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 1280938009196 TPP-binding site [chemical binding]; other site 1280938009197 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1280938009198 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1280938009199 FAD binding pocket [chemical binding]; other site 1280938009200 FAD binding motif [chemical binding]; other site 1280938009201 phosphate binding motif [ion binding]; other site 1280938009202 NAD binding pocket [chemical binding]; other site 1280938009203 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 1280938009204 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938009205 DNA-binding site [nucleotide binding]; DNA binding site 1280938009206 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 1280938009207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938009208 homodimer interface [polypeptide binding]; other site 1280938009209 catalytic residue [active] 1280938009210 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 1280938009211 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938009212 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 1280938009213 putative DNA binding site [nucleotide binding]; other site 1280938009214 putative Zn2+ binding site [ion binding]; other site 1280938009215 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938009216 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1280938009217 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1280938009218 glutathione reductase; Validated; Region: PRK06116 1280938009219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938009220 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938009221 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1280938009222 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938009223 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 1280938009224 active site 1280938009225 metal binding site [ion binding]; metal-binding site 1280938009226 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1280938009227 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1280938009228 active site 1280938009229 tetramer interface; other site 1280938009230 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1280938009231 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1280938009232 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1280938009233 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1280938009234 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 1280938009235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938009236 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1280938009237 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1280938009238 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938009239 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938009240 multidrug efflux protein; Reviewed; Region: PRK09577 1280938009241 Protein export membrane protein; Region: SecD_SecF; cl14618 1280938009242 SdiA-regulated; Region: SdiA-regulated; pfam06977 1280938009243 SdiA-regulated; Region: SdiA-regulated; cd09971 1280938009244 putative active site [active] 1280938009245 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1280938009246 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1280938009247 DNA binding residues [nucleotide binding] 1280938009248 putative dimer interface [polypeptide binding]; other site 1280938009249 isovaleryl-CoA dehydrogenase; Region: PLN02519 1280938009250 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1280938009251 substrate binding site [chemical binding]; other site 1280938009252 FAD binding site [chemical binding]; other site 1280938009253 catalytic base [active] 1280938009254 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1280938009255 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1280938009256 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1280938009257 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 1280938009258 substrate binding site [chemical binding]; other site 1280938009259 oxyanion hole (OAH) forming residues; other site 1280938009260 trimer interface [polypeptide binding]; other site 1280938009261 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1280938009262 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938009263 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938009264 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1280938009265 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 1280938009266 carboxyltransferase (CT) interaction site; other site 1280938009267 biotinylation site [posttranslational modification]; other site 1280938009268 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1280938009269 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1280938009270 active site 1280938009271 catalytic residues [active] 1280938009272 metal binding site [ion binding]; metal-binding site 1280938009273 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1280938009274 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1280938009275 Bacterial transcriptional regulator; Region: IclR; pfam01614 1280938009276 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1280938009277 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1280938009278 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1280938009279 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1280938009280 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 1280938009281 C-terminal domain interface [polypeptide binding]; other site 1280938009282 GSH binding site (G-site) [chemical binding]; other site 1280938009283 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1280938009284 putative dimer interface [polypeptide binding]; other site 1280938009285 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1280938009286 dimer interface [polypeptide binding]; other site 1280938009287 N-terminal domain interface [polypeptide binding]; other site 1280938009288 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1280938009289 benzoate transport; Region: 2A0115; TIGR00895 1280938009290 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 1280938009291 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 1280938009292 PAS domain; Region: PAS; smart00091 1280938009293 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1280938009294 putative active site [active] 1280938009295 heme pocket [chemical binding]; other site 1280938009296 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 1280938009297 Walker B motif; other site 1280938009298 arginine finger; other site 1280938009299 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938009300 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1280938009301 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1280938009302 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1280938009303 NAD binding site [chemical binding]; other site 1280938009304 homotetramer interface [polypeptide binding]; other site 1280938009305 homodimer interface [polypeptide binding]; other site 1280938009306 substrate binding site [chemical binding]; other site 1280938009307 active site 1280938009308 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1280938009309 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1280938009310 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 1280938009311 dimer interface [polypeptide binding]; other site 1280938009312 active site 1280938009313 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1280938009314 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1280938009315 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938009316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009317 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 1280938009318 putative dimerization interface [polypeptide binding]; other site 1280938009319 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1280938009320 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1280938009321 acyl-activating enzyme (AAE) consensus motif; other site 1280938009322 putative AMP binding site [chemical binding]; other site 1280938009323 putative active site [active] 1280938009324 putative CoA binding site [chemical binding]; other site 1280938009325 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1280938009326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1280938009327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3554 1280938009328 major facilitator superfamily transporter; Provisional; Region: PRK05122 1280938009329 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 1280938009330 putative substrate translocation pore; other site 1280938009331 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 1280938009332 PAS domain S-box; Region: sensory_box; TIGR00229 1280938009333 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1280938009334 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 1280938009335 dimer interface [polypeptide binding]; other site 1280938009336 phosphorylation site [posttranslational modification] 1280938009337 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 1280938009338 ATP binding site [chemical binding]; other site 1280938009339 G-X-G motif; other site 1280938009340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938009341 active site 1280938009342 phosphorylation site [posttranslational modification] 1280938009343 intermolecular recognition site; other site 1280938009344 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1280938009345 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1280938009346 putative active site [active] 1280938009347 metal binding site [ion binding]; metal-binding site 1280938009348 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1280938009349 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938009350 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1280938009351 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 1280938009352 FeS/SAM binding site; other site 1280938009353 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1280938009354 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1280938009355 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1280938009356 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1280938009357 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1280938009358 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1280938009359 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1280938009360 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1280938009361 NAD(P) binding site [chemical binding]; other site 1280938009362 catalytic residues [active] 1280938009363 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938009364 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1280938009365 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1280938009366 dimer interface [polypeptide binding]; other site 1280938009367 Trp docking motif [polypeptide binding]; other site 1280938009368 active site 1280938009369 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1280938009370 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1280938009371 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1280938009372 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1280938009373 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1280938009374 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1280938009375 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938009376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938009377 active site 1280938009378 phosphorylation site [posttranslational modification] 1280938009379 intermolecular recognition site; other site 1280938009380 dimerization interface [polypeptide binding]; other site 1280938009381 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 1280938009382 DNA binding residues [nucleotide binding] 1280938009383 dimerization interface [polypeptide binding]; other site 1280938009384 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1280938009385 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 1280938009386 ATP binding site [chemical binding]; other site 1280938009387 Mg2+ binding site [ion binding]; other site 1280938009388 G-X-G motif; other site 1280938009389 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938009390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938009391 active site 1280938009392 phosphorylation site [posttranslational modification] 1280938009393 intermolecular recognition site; other site 1280938009394 dimerization interface [polypeptide binding]; other site 1280938009395 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 1280938009396 DNA binding residues [nucleotide binding] 1280938009397 dimerization interface [polypeptide binding]; other site 1280938009398 PAS fold; Region: PAS_7; pfam12860 1280938009399 PAS fold; Region: PAS_7; pfam12860 1280938009400 PAS fold; Region: PAS_4; pfam08448 1280938009401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938009402 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 1280938009403 dimer interface [polypeptide binding]; other site 1280938009404 phosphorylation site [posttranslational modification] 1280938009405 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 1280938009406 ATP binding site [chemical binding]; other site 1280938009407 Mg2+ binding site [ion binding]; other site 1280938009408 G-X-G motif; other site 1280938009409 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938009410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938009411 active site 1280938009412 phosphorylation site [posttranslational modification] 1280938009413 intermolecular recognition site; other site 1280938009414 dimerization interface [polypeptide binding]; other site 1280938009415 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1280938009416 FIST N domain; Region: FIST; pfam08495 1280938009417 FIST C domain; Region: FIST_C; pfam10442 1280938009418 Gram-negative porin; Region: Porin_4; pfam13609 1280938009419 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1280938009420 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1280938009421 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1280938009422 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1280938009423 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1280938009424 Sulfatase; Region: Sulfatase; pfam00884 1280938009425 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1280938009426 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1280938009427 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 1280938009428 putative substrate binding pocket [chemical binding]; other site 1280938009429 trimer interface [polypeptide binding]; other site 1280938009430 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1280938009431 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938009432 Walker A/P-loop; other site 1280938009433 ATP binding site [chemical binding]; other site 1280938009434 Q-loop/lid; other site 1280938009435 ABC transporter signature motif; other site 1280938009436 Walker B; other site 1280938009437 D-loop; other site 1280938009438 H-loop/switch region; other site 1280938009439 ABC transporter; Region: ABC_tran_2; pfam12848 1280938009440 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938009441 azoreductase; Reviewed; Region: PRK00170 1280938009442 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938009443 LysR family transcriptional regulator; Provisional; Region: PRK14997 1280938009444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009445 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 1280938009446 dimerization interface [polypeptide binding]; other site 1280938009447 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 1280938009448 DNA-binding site [nucleotide binding]; DNA binding site 1280938009449 RNA-binding motif; other site 1280938009450 Predicted membrane protein [Function unknown]; Region: COG3326 1280938009451 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1280938009452 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1280938009453 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1280938009454 AAA domain; Region: AAA_28; pfam13521 1280938009455 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 1280938009456 putative active site [active] 1280938009457 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1280938009458 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1280938009459 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1280938009460 substrate binding site [chemical binding]; other site 1280938009461 dimer interface [polypeptide binding]; other site 1280938009462 ATP binding site [chemical binding]; other site 1280938009463 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1280938009464 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1280938009465 DNA binding site [nucleotide binding] 1280938009466 domain linker motif; other site 1280938009467 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1280938009468 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1280938009469 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1280938009470 TM-ABC transporter signature motif; other site 1280938009471 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1280938009472 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1280938009473 Walker A/P-loop; other site 1280938009474 ATP binding site [chemical binding]; other site 1280938009475 Q-loop/lid; other site 1280938009476 ABC transporter signature motif; other site 1280938009477 Walker B; other site 1280938009478 D-loop; other site 1280938009479 H-loop/switch region; other site 1280938009480 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1280938009481 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1280938009482 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1280938009483 ligand binding site [chemical binding]; other site 1280938009484 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938009485 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 1280938009486 Walker A motif; other site 1280938009487 ATP binding site [chemical binding]; other site 1280938009488 Walker B motif; other site 1280938009489 arginine finger; other site 1280938009490 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938009491 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1280938009492 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1280938009493 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938009494 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1280938009495 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938009496 Coenzyme A binding pocket [chemical binding]; other site 1280938009497 Peptidase_C39 like family; Region: DUF3335; pfam11814 1280938009498 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 1280938009499 putative heme binding pocket [chemical binding]; other site 1280938009500 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938009501 active site 1280938009502 phosphorylation site [posttranslational modification] 1280938009503 intermolecular recognition site; other site 1280938009504 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1280938009505 HTH-like domain; Region: HTH_21; pfam13276 1280938009506 Integrase core domain; Region: rve; pfam00665 1280938009507 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1280938009508 Integrase core domain; Region: rve_3; pfam13683 1280938009509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1280938009510 Transposase; Region: HTH_Tnp_1; pfam01527 1280938009511 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 1280938009512 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1280938009513 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1280938009514 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938009515 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1280938009516 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1280938009517 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1280938009518 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1280938009519 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 1280938009520 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1280938009521 putative active site [active] 1280938009522 heme pocket [chemical binding]; other site 1280938009523 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 1280938009524 putative active site [active] 1280938009525 heme pocket [chemical binding]; other site 1280938009526 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1280938009527 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938009528 dimer interface [polypeptide binding]; other site 1280938009529 putative CheW interface [polypeptide binding]; other site 1280938009530 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1280938009531 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1280938009532 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1280938009533 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 1280938009534 THF binding site; other site 1280938009535 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 1280938009536 substrate binding site [chemical binding]; other site 1280938009537 THF binding site; other site 1280938009538 zinc-binding site [ion binding]; other site 1280938009539 YcaO domain protein; Region: TIGR03549 1280938009540 OsmC-like protein; Region: OsmC; pfam02566 1280938009541 YcaO-like family; Region: YcaO; pfam02624 1280938009542 Uncharacterized conserved protein [Function unknown]; Region: COG4744 1280938009543 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1280938009544 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1280938009545 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1280938009546 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1280938009547 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1280938009548 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 1280938009549 N-terminal plug; other site 1280938009550 ligand-binding site [chemical binding]; other site 1280938009551 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938009552 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 1280938009553 S-adenosylmethionine binding site [chemical binding]; other site 1280938009554 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1280938009555 ATP cone domain; Region: ATP-cone; pfam03477 1280938009556 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1280938009557 effector binding site; other site 1280938009558 active site 1280938009559 Zn binding site [ion binding]; other site 1280938009560 glycine loop; other site 1280938009561 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1280938009562 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1280938009563 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 1280938009564 FeS/SAM binding site; other site 1280938009565 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938009566 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938009567 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1280938009568 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1280938009569 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1280938009570 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1280938009571 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1280938009572 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 1280938009573 RNA polymerase sigma factor; Provisional; Region: PRK12528 1280938009574 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938009575 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 1280938009576 DNA binding residues [nucleotide binding] 1280938009577 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938009578 FecR protein; Region: FecR; pfam04773 1280938009579 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1280938009580 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 1280938009581 N-terminal plug; other site 1280938009582 ligand-binding site [chemical binding]; other site 1280938009583 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1280938009584 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1280938009585 RNA polymerase Rpb5, C-terminal domain; Region: RNA_pol_Rpb5_C; cl00883 1280938009586 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1280938009587 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 1280938009588 putative substrate translocation pore; other site 1280938009589 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938009590 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 1280938009591 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1280938009592 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 1280938009593 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1280938009594 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1280938009595 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 1280938009596 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1280938009597 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1280938009598 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1280938009599 glutamine binding [chemical binding]; other site 1280938009600 catalytic triad [active] 1280938009601 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1280938009602 hydrophobic substrate binding pocket; other site 1280938009603 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938009604 active site 1280938009605 conserved cis-peptide bond; other site 1280938009606 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 1280938009607 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1280938009608 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1280938009609 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1280938009610 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 1280938009611 DNA binding residues [nucleotide binding] 1280938009612 dimerization interface [polypeptide binding]; other site 1280938009613 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1280938009614 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1280938009615 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1280938009616 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1280938009617 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1280938009618 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 1280938009619 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 1280938009620 active site 1280938009621 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938009622 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1280938009623 putative C-terminal domain interface [polypeptide binding]; other site 1280938009624 putative GSH binding site (G-site) [chemical binding]; other site 1280938009625 putative dimer interface [polypeptide binding]; other site 1280938009626 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1280938009627 putative N-terminal domain interface [polypeptide binding]; other site 1280938009628 putative dimer interface [polypeptide binding]; other site 1280938009629 putative substrate binding pocket (H-site) [chemical binding]; other site 1280938009630 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938009631 DNA polymerase II; Reviewed; Region: PRK05762 1280938009632 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1280938009633 active site 1280938009634 catalytic site [active] 1280938009635 substrate binding site [chemical binding]; other site 1280938009636 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 1280938009637 active site 1280938009638 metal-binding site 1280938009639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938009640 Coenzyme A binding pocket [chemical binding]; other site 1280938009641 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1280938009642 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 1280938009643 sequence-specific DNA binding site [nucleotide binding]; other site 1280938009644 salt bridge; other site 1280938009645 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1280938009646 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1280938009647 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1280938009648 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 1280938009649 catalytic loop [active] 1280938009650 iron binding site [ion binding]; other site 1280938009651 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1280938009652 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1280938009653 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938009654 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1280938009655 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938009656 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938009657 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 1280938009658 non-specific DNA binding site [nucleotide binding]; other site 1280938009659 salt bridge; other site 1280938009660 sequence-specific DNA binding site [nucleotide binding]; other site 1280938009661 HD domain; Region: HD_3; pfam13023 1280938009662 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1280938009663 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938009664 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938009665 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1280938009666 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 1280938009667 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938009668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938009669 Walker A/P-loop; other site 1280938009670 ATP binding site [chemical binding]; other site 1280938009671 Q-loop/lid; other site 1280938009672 ABC transporter signature motif; other site 1280938009673 Walker B; other site 1280938009674 D-loop; other site 1280938009675 H-loop/switch region; other site 1280938009676 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1280938009677 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1280938009678 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1280938009679 Cl binding site [ion binding]; other site 1280938009680 oligomer interface [polypeptide binding]; other site 1280938009681 EcsC protein family; Region: EcsC; pfam12787 1280938009682 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1280938009683 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938009684 acyl carrier protein; Provisional; Region: acpP; PRK00982 1280938009685 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1280938009686 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938009687 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938009688 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938009689 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938009690 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1280938009691 DEAD-like helicases superfamily; Region: DEXDc2; smart00488 1280938009692 DEAD_2; Region: DEAD_2; pfam06733 1280938009693 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1280938009694 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1280938009695 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1280938009696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938009697 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1280938009698 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1280938009699 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938009700 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1280938009701 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 1280938009702 dimer interface [polypeptide binding]; other site 1280938009703 conserved gate region; other site 1280938009704 putative PBP binding loops; other site 1280938009705 ABC-ATPase subunit interface; other site 1280938009706 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1280938009707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938009708 Walker A/P-loop; other site 1280938009709 ATP binding site [chemical binding]; other site 1280938009710 Q-loop/lid; other site 1280938009711 ABC transporter signature motif; other site 1280938009712 Walker B; other site 1280938009713 D-loop; other site 1280938009714 H-loop/switch region; other site 1280938009715 TOBE domain; Region: TOBE; cl01440 1280938009716 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1280938009717 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1280938009718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938009719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009720 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1280938009721 putative effector binding pocket; other site 1280938009722 dimerization interface [polypeptide binding]; other site 1280938009723 Streptomycin 6-kinase [Defense mechanisms]; Region: StrB; COG3570 1280938009724 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1280938009725 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1280938009726 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1280938009727 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 1280938009728 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1280938009729 Low-spin heme binding site [chemical binding]; other site 1280938009730 Putative water exit pathway; other site 1280938009731 Binuclear center (active site) [active] 1280938009732 Putative proton exit pathway; other site 1280938009733 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1280938009734 HPP family; Region: HPP; pfam04982 1280938009735 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1280938009736 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938009737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009738 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938009739 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938009740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938009741 metal binding site [ion binding]; metal-binding site 1280938009742 active site 1280938009743 I-site; other site 1280938009744 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1280938009745 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1280938009746 conserved cys residue [active] 1280938009747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938009748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938009749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1280938009750 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1280938009751 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 1280938009752 putative substrate translocation pore; other site 1280938009753 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1280938009754 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1280938009755 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1280938009756 Cytochrome c; Region: Cytochrom_C; cl11414 1280938009757 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1280938009758 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1280938009759 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1280938009760 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1280938009761 substrate binding pocket [chemical binding]; other site 1280938009762 dimer interface [polypeptide binding]; other site 1280938009763 inhibitor binding site; inhibition site 1280938009764 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 1280938009765 B12 binding site [chemical binding]; other site 1280938009766 cobalt ligand [ion binding]; other site 1280938009767 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1280938009768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 1280938009769 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1280938009770 putative deacylase active site [active] 1280938009771 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1280938009772 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 1280938009773 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1280938009774 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1280938009775 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1280938009776 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1280938009777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1280938009778 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938009779 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938009780 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 1280938009781 CoenzymeA binding site [chemical binding]; other site 1280938009782 subunit interaction site [polypeptide binding]; other site 1280938009783 PHB binding site; other site 1280938009784 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1280938009785 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938009786 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1280938009787 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1280938009788 NADP binding site [chemical binding]; other site 1280938009789 dimer interface [polypeptide binding]; other site 1280938009790 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1280938009791 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1280938009792 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1280938009793 tandem repeat interface [polypeptide binding]; other site 1280938009794 oligomer interface [polypeptide binding]; other site 1280938009795 active site residues [active] 1280938009796 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 1280938009797 catalytic core [active] 1280938009798 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 1280938009799 Phosphotransferase enzyme family; Region: APH; pfam01636 1280938009800 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 1280938009801 putative active site [active] 1280938009802 putative substrate binding site [chemical binding]; other site 1280938009803 ATP binding site [chemical binding]; other site 1280938009804 short chain dehydrogenase; Provisional; Region: PRK07035 1280938009805 classical (c) SDRs; Region: SDR_c; cd05233 1280938009806 NAD(P) binding site [chemical binding]; other site 1280938009807 active site 1280938009808 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1280938009809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938009810 NAD(P) binding site [chemical binding]; other site 1280938009811 active site 1280938009812 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1280938009813 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938009814 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1280938009815 dimerization interface [polypeptide binding]; other site 1280938009816 substrate binding pocket [chemical binding]; other site 1280938009817 hypothetical protein; Provisional; Region: PRK10621 1280938009818 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1280938009819 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1280938009820 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1280938009821 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1280938009822 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 1280938009823 putative NADH binding site [chemical binding]; other site 1280938009824 putative active site [active] 1280938009825 nudix motif; other site 1280938009826 putative metal binding site [ion binding]; other site 1280938009827 enoyl-CoA hydratase; Provisional; Region: PRK06142 1280938009828 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 1280938009829 substrate binding site [chemical binding]; other site 1280938009830 oxyanion hole (OAH) forming residues; other site 1280938009831 trimer interface [polypeptide binding]; other site 1280938009832 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1280938009833 arginine:agmatin antiporter; Provisional; Region: PRK10644 1280938009834 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1280938009835 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1280938009836 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 1280938009837 homodimer interface [polypeptide binding]; other site 1280938009838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938009839 catalytic residue [active] 1280938009840 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1280938009841 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1280938009842 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 1280938009843 active site 1280938009844 catalytic site [active] 1280938009845 substrate binding site [chemical binding]; other site 1280938009846 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1280938009847 RNA/DNA hybrid binding site [nucleotide binding]; other site 1280938009848 active site 1280938009849 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1280938009850 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1280938009851 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1280938009852 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 1280938009853 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938009854 catalytic residue [active] 1280938009855 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938009856 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938009857 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938009858 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1280938009859 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 1280938009860 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1280938009861 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 1280938009862 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1280938009863 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 1280938009864 dimer interface [polypeptide binding]; other site 1280938009865 conserved gate region; other site 1280938009866 putative PBP binding loops; other site 1280938009867 ABC-ATPase subunit interface; other site 1280938009868 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1280938009869 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1280938009870 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 1280938009871 dimer interface [polypeptide binding]; other site 1280938009872 conserved gate region; other site 1280938009873 putative PBP binding loops; other site 1280938009874 ABC-ATPase subunit interface; other site 1280938009875 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1280938009876 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1280938009877 Walker A/P-loop; other site 1280938009878 ATP binding site [chemical binding]; other site 1280938009879 Q-loop/lid; other site 1280938009880 ABC transporter signature motif; other site 1280938009881 Walker B; other site 1280938009882 D-loop; other site 1280938009883 H-loop/switch region; other site 1280938009884 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1280938009885 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1280938009886 Walker A/P-loop; other site 1280938009887 ATP binding site [chemical binding]; other site 1280938009888 Q-loop/lid; other site 1280938009889 ABC transporter signature motif; other site 1280938009890 Walker B; other site 1280938009891 D-loop; other site 1280938009892 H-loop/switch region; other site 1280938009893 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1280938009894 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1280938009895 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1280938009896 NAD binding site [chemical binding]; other site 1280938009897 homotetramer interface [polypeptide binding]; other site 1280938009898 homodimer interface [polypeptide binding]; other site 1280938009899 substrate binding site [chemical binding]; other site 1280938009900 active site 1280938009901 periplasmic folding chaperone; Provisional; Region: PRK10788 1280938009902 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1280938009903 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1280938009904 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 1280938009905 IHF dimer interface [polypeptide binding]; other site 1280938009906 IHF - DNA interface [nucleotide binding]; other site 1280938009907 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1280938009908 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1280938009909 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 1280938009910 Walker A motif; other site 1280938009911 ATP binding site [chemical binding]; other site 1280938009912 Walker B motif; other site 1280938009913 arginine finger; other site 1280938009914 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1280938009915 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1280938009916 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1280938009917 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 1280938009918 Walker A motif; other site 1280938009919 ATP binding site [chemical binding]; other site 1280938009920 Walker B motif; other site 1280938009921 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1280938009922 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1280938009923 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1280938009924 oligomer interface [polypeptide binding]; other site 1280938009925 active site residues [active] 1280938009926 trigger factor; Provisional; Region: tig; PRK01490 1280938009927 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1280938009928 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1280938009929 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1280938009930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938009931 active site 1280938009932 phosphorylation site [posttranslational modification] 1280938009933 intermolecular recognition site; other site 1280938009934 dimerization interface [polypeptide binding]; other site 1280938009935 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 1280938009936 DNA binding site [nucleotide binding] 1280938009937 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 1280938009938 dimerization interface [polypeptide binding]; other site 1280938009939 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 1280938009940 dimer interface [polypeptide binding]; other site 1280938009941 phosphorylation site [posttranslational modification] 1280938009942 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 1280938009943 ATP binding site [chemical binding]; other site 1280938009944 Mg2+ binding site [ion binding]; other site 1280938009945 G-X-G motif; other site 1280938009946 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1280938009947 Beta-lactamase; Region: Beta-lactamase; pfam00144 1280938009948 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1280938009949 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1280938009950 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1280938009951 homodimer interface [polypeptide binding]; other site 1280938009952 NADP binding site [chemical binding]; other site 1280938009953 substrate binding site [chemical binding]; other site 1280938009954 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1280938009955 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1280938009956 active site 1280938009957 HIGH motif; other site 1280938009958 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1280938009959 KMSKS motif; other site 1280938009960 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1280938009961 tRNA binding surface [nucleotide binding]; other site 1280938009962 anticodon binding site; other site 1280938009963 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1280938009964 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1280938009965 active site 1280938009966 HIGH motif; other site 1280938009967 nucleotide binding site [chemical binding]; other site 1280938009968 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1280938009969 KMSKS motif; other site 1280938009970 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1280938009971 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 1280938009972 substrate binding site [chemical binding]; other site 1280938009973 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1280938009974 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1280938009975 putative active site [active] 1280938009976 putative metal binding site [ion binding]; other site 1280938009977 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1280938009978 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1280938009979 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1280938009980 active site 1280938009981 dinuclear metal binding site [ion binding]; other site 1280938009982 dimerization interface [polypeptide binding]; other site 1280938009983 universal stress protein UspE; Provisional; Region: PRK11175 1280938009984 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 1280938009985 Ligand Binding Site [chemical binding]; other site 1280938009986 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 1280938009987 Ligand Binding Site [chemical binding]; other site 1280938009988 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1280938009989 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1280938009990 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 1280938009991 substrate binding site [chemical binding]; other site 1280938009992 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1280938009993 substrate binding site [chemical binding]; other site 1280938009994 ligand binding site [chemical binding]; other site 1280938009995 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1280938009996 NMT1-like family; Region: NMT1_2; pfam13379 1280938009997 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1280938009998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938009999 active site 1280938010000 phosphorylation site [posttranslational modification] 1280938010001 intermolecular recognition site; other site 1280938010002 dimerization interface [polypeptide binding]; other site 1280938010003 ANTAR domain; Region: ANTAR; pfam03861 1280938010004 Alginate lyase; Region: Alginate_lyase2; pfam08787 1280938010005 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1280938010006 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 1280938010007 putative substrate translocation pore; other site 1280938010008 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 1280938010009 active site 1280938010010 Protein kinase domain; Region: Pkinase; pfam00069 1280938010011 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1280938010012 active site 1280938010013 ATP binding site [chemical binding]; other site 1280938010014 substrate binding site [chemical binding]; other site 1280938010015 activation loop (A-loop); other site 1280938010016 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1280938010017 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938010018 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1280938010019 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1280938010020 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1280938010021 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 1280938010022 [2Fe-2S] cluster binding site [ion binding]; other site 1280938010023 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 1280938010024 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1280938010025 [4Fe-4S] binding site [ion binding]; other site 1280938010026 molybdopterin cofactor binding site; other site 1280938010027 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 1280938010028 molybdopterin cofactor binding site; other site 1280938010029 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1280938010030 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1280938010031 active site 1280938010032 SAM binding site [chemical binding]; other site 1280938010033 homodimer interface [polypeptide binding]; other site 1280938010034 OprF membrane domain; Region: OprF; pfam05736 1280938010035 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938010036 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938010037 ligand binding site [chemical binding]; other site 1280938010038 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1280938010039 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938010040 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 1280938010041 DNA binding residues [nucleotide binding] 1280938010042 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938010043 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1280938010044 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1280938010045 Cl binding site [ion binding]; other site 1280938010046 oligomer interface [polypeptide binding]; other site 1280938010047 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1280938010048 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938010049 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1280938010050 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1280938010051 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1280938010052 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1280938010053 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1280938010054 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1280938010055 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1280938010056 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1280938010057 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1280938010058 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1280938010059 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 1280938010060 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1280938010061 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1280938010062 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 1280938010063 putative active site [active] 1280938010064 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1280938010065 AAA ATPase domain; Region: AAA_16; pfam13191 1280938010066 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 1280938010067 DNA binding residues [nucleotide binding] 1280938010068 dimerization interface [polypeptide binding]; other site 1280938010069 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1280938010070 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 1280938010071 DNA binding residues [nucleotide binding] 1280938010072 dimerization interface [polypeptide binding]; other site 1280938010073 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1280938010074 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 1280938010075 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1280938010076 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 1280938010077 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1280938010078 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1280938010079 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 1280938010080 Active Sites [active] 1280938010081 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1280938010082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938010083 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1280938010084 substrate binding site [chemical binding]; other site 1280938010085 dimerization interface [polypeptide binding]; other site 1280938010086 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 1280938010087 Ligand Binding Site [chemical binding]; other site 1280938010088 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1280938010089 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1280938010090 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1280938010091 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 1280938010092 catalytic residues [active] 1280938010093 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1280938010094 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1280938010095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938010096 Coenzyme A binding pocket [chemical binding]; other site 1280938010097 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1280938010098 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 1280938010099 substrate binding site [chemical binding]; other site 1280938010100 oxyanion hole (OAH) forming residues; other site 1280938010101 trimer interface [polypeptide binding]; other site 1280938010102 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 1280938010103 ADP-ribose binding site [chemical binding]; other site 1280938010104 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1280938010105 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1280938010106 catalytic triad [active] 1280938010107 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1280938010108 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1280938010109 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 1280938010110 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938010111 active site 1280938010112 catalytic tetrad [active] 1280938010113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938010114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938010115 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 1280938010116 putative effector binding pocket; other site 1280938010117 putative dimerization interface [polypeptide binding]; other site 1280938010118 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1280938010119 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 1280938010120 substrate binding site [chemical binding]; other site 1280938010121 oxyanion hole (OAH) forming residues; other site 1280938010122 trimer interface [polypeptide binding]; other site 1280938010123 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1280938010124 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938010125 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1280938010126 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 1280938010127 dimer interface [polypeptide binding]; other site 1280938010128 active site 1280938010129 Predicted permeases [General function prediction only]; Region: COG0679 1280938010130 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938010131 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938010132 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1280938010133 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 1280938010134 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1280938010135 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1280938010136 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1280938010137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1280938010138 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1280938010139 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1280938010140 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1280938010141 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1280938010142 catalytic triad [active] 1280938010143 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1280938010144 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1280938010145 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1280938010146 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1280938010147 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938010148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938010149 metal binding site [ion binding]; metal-binding site 1280938010150 active site 1280938010151 I-site; other site 1280938010152 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 1280938010153 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1280938010154 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1280938010155 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1280938010156 Switch II region; other site 1280938010157 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1280938010158 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1280938010159 Flagellar assembly protein FliH; Region: FliH; pfam02108 1280938010160 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 1280938010161 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 1280938010162 type III secretion apparatus protein, YscI/HrpB, C-terminal domain; Region: yscI_hrpB_dom; TIGR02497 1280938010163 YopR Core; Region: YopR_core; cl07585 1280938010164 Bacterial type II secretion system chaperone protein (type_III_yscG); Region: Type_III_YscG; pfam09477 1280938010165 Type III secretion needle MxiH like; Region: MxiH; cl09641 1280938010166 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 1280938010167 type III secretion system protein SsaD; Provisional; Region: PRK15367 1280938010168 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1280938010169 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1280938010170 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938010171 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938010172 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938010173 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1280938010174 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 1280938010175 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938010176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938010177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938010178 type III secretion system chaperone YscW; Region: YscW; TIGR02567 1280938010179 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1280938010180 YopD protein; Region: YopD; pfam05844 1280938010181 Uncharacterized conserved protein [Function unknown]; Region: COG5613 1280938010182 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1280938010183 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 1280938010184 binding surface 1280938010185 TPR motif; other site 1280938010186 V antigen (LcrV) protein; Region: LcrV; pfam04792 1280938010187 LcrG protein; Region: LcrG; cl06311 1280938010188 type III secretion system regulator LcrR; Region: LcrR; TIGR02572 1280938010189 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 1280938010190 FHIPEP family; Region: FHIPEP; pfam00771 1280938010191 type III secretion protein, YscX family; Region: type_III_YscX; TIGR02502 1280938010192 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 1280938010193 TyeA; Region: TyeA; pfam09059 1280938010194 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 1280938010195 type III secretion system ATPase; Provisional; Region: PRK06936 1280938010196 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1280938010197 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 1280938010198 Walker A motif/ATP binding site; other site 1280938010199 Walker B motif; other site 1280938010200 Type III secretion protein YscO; Region: YscO; pfam07321 1280938010201 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 1280938010202 type III secretion system protein; Validated; Region: PRK06933 1280938010203 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1280938010204 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 1280938010205 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1280938010206 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 1280938010207 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 1280938010208 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1280938010209 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1280938010210 Sulfatase; Region: Sulfatase; pfam00884 1280938010211 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1280938010212 Strictosidine synthase; Region: Str_synth; pfam03088 1280938010213 spermidine synthase; Provisional; Region: PRK00811 1280938010214 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 1280938010215 S-adenosylmethionine binding site [chemical binding]; other site 1280938010216 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1280938010217 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1280938010218 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1280938010219 minor groove reading motif; other site 1280938010220 helix-hairpin-helix signature motif; other site 1280938010221 substrate binding pocket [chemical binding]; other site 1280938010222 active site 1280938010223 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 1280938010224 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1280938010225 Cupin domain; Region: Cupin_2; cl17218 1280938010226 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1280938010227 intersubunit interface [polypeptide binding]; other site 1280938010228 active site 1280938010229 Zn2+ binding site [ion binding]; other site 1280938010230 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 1280938010231 putative substrate translocation pore; other site 1280938010232 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1280938010233 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1280938010234 Tetramer interface [polypeptide binding]; other site 1280938010235 active site 1280938010236 FMN-binding site [chemical binding]; other site 1280938010237 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1280938010238 HemK family putative methylases; Region: hemK_fam; TIGR00536 1280938010239 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 1280938010240 S-adenosylmethionine binding site [chemical binding]; other site 1280938010241 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 1280938010242 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938010243 catalytic triad [active] 1280938010244 conserved cis-peptide bond; other site 1280938010245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1280938010246 Smr domain; Region: Smr; pfam01713 1280938010247 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 1280938010248 homodecamer interface [polypeptide binding]; other site 1280938010249 GTP cyclohydrolase I; Provisional; Region: PLN03044 1280938010250 active site 1280938010251 putative catalytic site residues [active] 1280938010252 zinc binding site [ion binding]; other site 1280938010253 GTP-CH-I/GFRP interaction surface; other site 1280938010254 Hemerythrin; Region: Hemerythrin; cd12107 1280938010255 Fe binding site [ion binding]; other site 1280938010256 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 1280938010257 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938010258 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1280938010259 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1280938010260 active site 1280938010261 ATP binding site [chemical binding]; other site 1280938010262 substrate binding site [chemical binding]; other site 1280938010263 activation loop (A-loop); other site 1280938010264 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1280938010265 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 1280938010266 Protein phosphatase 2C; Region: PP2C; pfam00481 1280938010267 active site 1280938010268 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1280938010269 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1280938010270 G1 box; other site 1280938010271 GTP/Mg2+ binding site [chemical binding]; other site 1280938010272 G2 box; other site 1280938010273 Switch I region; other site 1280938010274 G3 box; other site 1280938010275 Switch II region; other site 1280938010276 G4 box; other site 1280938010277 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1280938010278 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1280938010279 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1280938010280 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1280938010281 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1280938010282 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 1280938010283 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1280938010284 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 1280938010285 phosphopeptide binding site; other site 1280938010286 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 1280938010287 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1280938010288 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 1280938010289 Walker A motif; other site 1280938010290 ATP binding site [chemical binding]; other site 1280938010291 Walker B motif; other site 1280938010292 arginine finger; other site 1280938010293 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938010294 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1280938010295 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 1280938010296 Walker A motif; other site 1280938010297 ATP binding site [chemical binding]; other site 1280938010298 Walker B motif; other site 1280938010299 arginine finger; other site 1280938010300 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 1280938010301 Walker A motif; other site 1280938010302 ATP binding site [chemical binding]; other site 1280938010303 Walker B motif; other site 1280938010304 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1280938010305 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1280938010306 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1280938010307 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1280938010308 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1280938010309 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1280938010310 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1280938010311 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1280938010312 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1280938010313 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1280938010314 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1280938010315 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1280938010316 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938010317 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938010318 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938010319 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1280938010320 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1280938010321 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1280938010322 RHS Repeat; Region: RHS_repeat; pfam05593 1280938010323 RHS Repeat; Region: RHS_repeat; pfam05593 1280938010324 RHS Repeat; Region: RHS_repeat; pfam05593 1280938010325 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1280938010326 RHS Repeat; Region: RHS_repeat; pfam05593 1280938010327 RHS Repeat; Region: RHS_repeat; pfam05593 1280938010328 RHS Repeat; Region: RHS_repeat; pfam05593 1280938010329 RHS Repeat; Region: RHS_repeat; pfam05593 1280938010330 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1280938010331 RHS protein; Region: RHS; pfam03527 1280938010332 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1280938010333 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938010334 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 1280938010335 putative C-terminal domain interface [polypeptide binding]; other site 1280938010336 putative GSH binding site (G-site) [chemical binding]; other site 1280938010337 putative dimer interface [polypeptide binding]; other site 1280938010338 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1280938010339 N-terminal domain interface [polypeptide binding]; other site 1280938010340 dimer interface [polypeptide binding]; other site 1280938010341 substrate binding pocket (H-site) [chemical binding]; other site 1280938010342 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1280938010343 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 1280938010344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938010345 homodimer interface [polypeptide binding]; other site 1280938010346 catalytic residue [active] 1280938010347 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1280938010348 MarR family; Region: MarR_2; pfam12802 1280938010349 benzoate transporter; Region: benE; TIGR00843 1280938010350 Benzoate membrane transport protein; Region: BenE; pfam03594 1280938010351 bile acid transporter; Region: bass; TIGR00841 1280938010352 Sodium Bile acid symporter family; Region: SBF; cl17470 1280938010353 short chain dehydrogenase; Provisional; Region: PRK06172 1280938010354 classical (c) SDRs; Region: SDR_c; cd05233 1280938010355 NAD(P) binding site [chemical binding]; other site 1280938010356 active site 1280938010357 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1280938010358 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1280938010359 NAD(P) binding site [chemical binding]; other site 1280938010360 substrate binding site [chemical binding]; other site 1280938010361 dimer interface [polypeptide binding]; other site 1280938010362 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1280938010363 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1280938010364 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1280938010365 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 1280938010366 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 1280938010367 dimerization interface [polypeptide binding]; other site 1280938010368 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938010369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938010370 dimer interface [polypeptide binding]; other site 1280938010371 putative CheW interface [polypeptide binding]; other site 1280938010372 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1280938010373 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1280938010374 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1280938010375 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1280938010376 active site residue [active] 1280938010377 selenophosphate synthetase; Provisional; Region: PRK00943 1280938010378 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 1280938010379 dimerization interface [polypeptide binding]; other site 1280938010380 putative ATP binding site [chemical binding]; other site 1280938010381 hypothetical protein; Provisional; Region: PRK10279 1280938010382 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1280938010383 active site 1280938010384 nucleophile elbow; other site 1280938010385 glutaminase; Provisional; Region: PRK00971 1280938010386 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1280938010387 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1280938010388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938010389 active site 1280938010390 phosphorylation site [posttranslational modification] 1280938010391 intermolecular recognition site; other site 1280938010392 dimerization interface [polypeptide binding]; other site 1280938010393 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 1280938010394 DNA binding site [nucleotide binding] 1280938010395 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1280938010396 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1280938010397 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1280938010398 Ligand Binding Site [chemical binding]; other site 1280938010399 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1280938010400 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 1280938010401 dimer interface [polypeptide binding]; other site 1280938010402 phosphorylation site [posttranslational modification] 1280938010403 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 1280938010404 ATP binding site [chemical binding]; other site 1280938010405 Mg2+ binding site [ion binding]; other site 1280938010406 G-X-G motif; other site 1280938010407 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1280938010408 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1280938010409 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1280938010410 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1280938010411 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1280938010412 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938010413 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938010414 active site 1280938010415 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1280938010416 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1280938010417 Bacterial transcriptional regulator; Region: IclR; pfam01614 1280938010418 enoyl-CoA hydratase; Provisional; Region: PRK08138 1280938010419 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 1280938010420 substrate binding site [chemical binding]; other site 1280938010421 oxyanion hole (OAH) forming residues; other site 1280938010422 trimer interface [polypeptide binding]; other site 1280938010423 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1280938010424 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1280938010425 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938010426 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938010427 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1280938010428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938010429 DNA-binding site [nucleotide binding]; DNA binding site 1280938010430 FCD domain; Region: FCD; pfam07729 1280938010431 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1280938010432 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 1280938010433 putative substrate translocation pore; other site 1280938010434 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1280938010435 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1280938010436 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 1280938010437 C-terminal domain interface [polypeptide binding]; other site 1280938010438 GSH binding site (G-site) [chemical binding]; other site 1280938010439 dimer interface [polypeptide binding]; other site 1280938010440 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1280938010441 N-terminal domain interface [polypeptide binding]; other site 1280938010442 dimer interface [polypeptide binding]; other site 1280938010443 substrate binding pocket (H-site) [chemical binding]; other site 1280938010444 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938010445 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938010446 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1280938010447 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938010448 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938010449 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938010450 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938010451 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 1280938010452 CoenzymeA binding site [chemical binding]; other site 1280938010453 subunit interaction site [polypeptide binding]; other site 1280938010454 PHB binding site; other site 1280938010455 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1280938010456 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1280938010457 acyl-activating enzyme (AAE) consensus motif; other site 1280938010458 putative AMP binding site [chemical binding]; other site 1280938010459 putative active site [active] 1280938010460 putative CoA binding site [chemical binding]; other site 1280938010461 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 1280938010462 catalytic core [active] 1280938010463 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1280938010464 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1280938010465 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1280938010466 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1280938010467 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938010468 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 1280938010469 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1280938010470 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 1280938010471 dimerization interface [polypeptide binding]; other site 1280938010472 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 1280938010473 dimer interface [polypeptide binding]; other site 1280938010474 phosphorylation site [posttranslational modification] 1280938010475 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 1280938010476 ATP binding site [chemical binding]; other site 1280938010477 Mg2+ binding site [ion binding]; other site 1280938010478 G-X-G motif; other site 1280938010479 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938010480 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938010481 active site 1280938010482 phosphorylation site [posttranslational modification] 1280938010483 intermolecular recognition site; other site 1280938010484 dimerization interface [polypeptide binding]; other site 1280938010485 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 1280938010486 active site 1 [active] 1280938010487 dimer interface [polypeptide binding]; other site 1280938010488 active site 2 [active] 1280938010489 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1280938010490 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 1280938010491 dimer interface [polypeptide binding]; other site 1280938010492 active site 1280938010493 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1280938010494 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 1280938010495 dimerization interface [polypeptide binding]; other site 1280938010496 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938010497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938010498 dimer interface [polypeptide binding]; other site 1280938010499 putative CheW interface [polypeptide binding]; other site 1280938010500 Predicted transcriptional regulators [Transcription]; Region: COG1733 1280938010501 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1280938010502 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 1280938010503 Amidohydrolase; Region: Amidohydro_2; pfam04909 1280938010504 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1280938010505 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 1280938010506 membrane-bound complex binding site; other site 1280938010507 hinge residues; other site 1280938010508 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1280938010509 MarR family; Region: MarR; pfam01047 1280938010510 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1280938010511 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 1280938010512 catalytic loop [active] 1280938010513 iron binding site [ion binding]; other site 1280938010514 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1280938010515 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1280938010516 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938010517 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1280938010518 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938010519 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938010520 cytochrome c-550; Provisional; Region: psbV; cl17239 1280938010521 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938010522 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938010523 Cupin domain; Region: Cupin_2; cl17218 1280938010524 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938010525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938010526 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938010527 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 1280938010528 oligomerization interface [polypeptide binding]; other site 1280938010529 active site 1280938010530 metal binding site [ion binding]; metal-binding site 1280938010531 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1280938010532 heat shock protein 90; Provisional; Region: PRK05218 1280938010533 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 1280938010534 ATP binding site [chemical binding]; other site 1280938010535 Mg2+ binding site [ion binding]; other site 1280938010536 G-X-G motif; other site 1280938010537 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1280938010538 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 1280938010539 CoenzymeA binding site [chemical binding]; other site 1280938010540 subunit interaction site [polypeptide binding]; other site 1280938010541 PHB binding site; other site 1280938010542 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 1280938010543 CoenzymeA binding site [chemical binding]; other site 1280938010544 subunit interaction site [polypeptide binding]; other site 1280938010545 PHB binding site; other site 1280938010546 Predicted membrane protein [Function unknown]; Region: COG3821 1280938010547 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1280938010548 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1280938010549 CoA binding domain; Region: CoA_binding; pfam02629 1280938010550 CoA-ligase; Region: Ligase_CoA; pfam00549 1280938010551 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1280938010552 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1280938010553 CoA-ligase; Region: Ligase_CoA; pfam00549 1280938010554 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1280938010555 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1280938010556 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938010557 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1280938010558 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1280938010559 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 1280938010560 E3 interaction surface; other site 1280938010561 lipoyl attachment site [posttranslational modification]; other site 1280938010562 e3 binding domain; Region: E3_binding; pfam02817 1280938010563 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1280938010564 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1280938010565 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 1280938010566 TPP-binding site [chemical binding]; other site 1280938010567 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1280938010568 PYR/PP interface [polypeptide binding]; other site 1280938010569 dimer interface [polypeptide binding]; other site 1280938010570 TPP binding site [chemical binding]; other site 1280938010571 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1280938010572 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1280938010573 L-aspartate oxidase; Provisional; Region: PRK06175 1280938010574 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1280938010575 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1280938010576 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 1280938010577 SdhC subunit interface [polypeptide binding]; other site 1280938010578 proximal heme binding site [chemical binding]; other site 1280938010579 cardiolipin binding site; other site 1280938010580 Iron-sulfur protein interface; other site 1280938010581 proximal quinone binding site [chemical binding]; other site 1280938010582 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 1280938010583 Iron-sulfur protein interface; other site 1280938010584 proximal quinone binding site [chemical binding]; other site 1280938010585 SdhD (CybS) interface [polypeptide binding]; other site 1280938010586 proximal heme binding site [chemical binding]; other site 1280938010587 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 1280938010588 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1280938010589 dimer interface [polypeptide binding]; other site 1280938010590 active site 1280938010591 citrylCoA binding site [chemical binding]; other site 1280938010592 NADH binding [chemical binding]; other site 1280938010593 cationic pore residues; other site 1280938010594 oxalacetate/citrate binding site [chemical binding]; other site 1280938010595 coenzyme A binding site [chemical binding]; other site 1280938010596 catalytic triad [active] 1280938010597 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1280938010598 putative lipid binding site [chemical binding]; other site 1280938010599 Flagellin N-methylase; Region: FliB; pfam03692 1280938010600 Protein of unknown function, DUF486; Region: DUF486; pfam04342 1280938010601 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1280938010602 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1280938010603 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1280938010604 active site 1280938010605 catalytic site [active] 1280938010606 substrate binding site [chemical binding]; other site 1280938010607 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1280938010608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 1280938010609 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1280938010610 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1280938010611 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1280938010612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938010613 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 1280938010614 dimerization interface [polypeptide binding]; other site 1280938010615 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1280938010616 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 1280938010617 putative substrate translocation pore; other site 1280938010618 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 1280938010619 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 1280938010620 homotrimer interaction site [polypeptide binding]; other site 1280938010621 putative active site [active] 1280938010622 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938010623 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938010624 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1280938010625 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938010626 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938010627 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938010628 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 1280938010629 CPxP motif; other site 1280938010630 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1280938010631 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1280938010632 aconitate hydratase; Validated; Region: PRK09277 1280938010633 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1280938010634 substrate binding site [chemical binding]; other site 1280938010635 ligand binding site [chemical binding]; other site 1280938010636 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 1280938010637 substrate binding site [chemical binding]; other site 1280938010638 PAS domain; Region: PAS_9; pfam13426 1280938010639 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 1280938010640 putative active site [active] 1280938010641 heme pocket [chemical binding]; other site 1280938010642 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938010643 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938010644 dimer interface [polypeptide binding]; other site 1280938010645 putative CheW interface [polypeptide binding]; other site 1280938010646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938010647 NAD(P) binding site [chemical binding]; other site 1280938010648 active site 1280938010649 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1280938010650 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1280938010651 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 1280938010652 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1280938010653 Low-spin heme binding site [chemical binding]; other site 1280938010654 Putative water exit pathway; other site 1280938010655 Binuclear center (active site) [active] 1280938010656 Putative proton exit pathway; other site 1280938010657 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1280938010658 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1280938010659 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 1280938010660 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1280938010661 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938010662 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938010663 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 1280938010664 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1280938010665 Low-spin heme binding site [chemical binding]; other site 1280938010666 Putative water exit pathway; other site 1280938010667 Binuclear center (active site) [active] 1280938010668 Putative proton exit pathway; other site 1280938010669 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1280938010670 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1280938010671 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 1280938010672 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1280938010673 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1280938010674 Cytochrome c; Region: Cytochrom_C; cl11414 1280938010675 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1280938010676 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1280938010677 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1280938010678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1280938010679 FixH; Region: FixH; pfam05751 1280938010680 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1280938010681 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1280938010682 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 1280938010683 metal-binding site [ion binding] 1280938010684 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1280938010685 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1280938010686 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1280938010687 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1280938010688 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1280938010689 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 1280938010690 FeS/SAM binding site; other site 1280938010691 HemN C-terminal domain; Region: HemN_C; pfam06969 1280938010692 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1280938010693 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 1280938010694 ligand binding site [chemical binding]; other site 1280938010695 flexible hinge region; other site 1280938010696 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 1280938010697 putative switch regulator; other site 1280938010698 non-specific DNA interactions [nucleotide binding]; other site 1280938010699 DNA binding site [nucleotide binding] 1280938010700 sequence specific DNA binding site [nucleotide binding]; other site 1280938010701 putative cAMP binding site [chemical binding]; other site 1280938010702 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938010703 active site 1280938010704 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1280938010705 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1280938010706 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1280938010707 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 1280938010708 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1280938010709 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938010710 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1280938010711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1280938010712 short chain dehydrogenase; Provisional; Region: PRK06181 1280938010713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938010714 NAD(P) binding site [chemical binding]; other site 1280938010715 active site 1280938010716 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 1280938010717 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938010718 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938010719 active site 1280938010720 recombination protein RecR; Reviewed; Region: recR; PRK00076 1280938010721 RecR protein; Region: RecR; pfam02132 1280938010722 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 1280938010723 putative active site [active] 1280938010724 putative metal-binding site [ion binding]; other site 1280938010725 tetramer interface [polypeptide binding]; other site 1280938010726 hypothetical protein; Validated; Region: PRK00153 1280938010727 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1280938010728 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 1280938010729 Walker A motif; other site 1280938010730 ATP binding site [chemical binding]; other site 1280938010731 Walker B motif; other site 1280938010732 arginine finger; other site 1280938010733 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1280938010734 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1280938010735 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 1280938010736 substrate binding pocket [chemical binding]; other site 1280938010737 membrane-bound complex binding site; other site 1280938010738 hinge residues; other site 1280938010739 Ligase N family; Region: LIGANc; smart00532 1280938010740 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 1280938010741 nucleotide binding pocket [chemical binding]; other site 1280938010742 K-X-D-G motif; other site 1280938010743 catalytic site [active] 1280938010744 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1280938010745 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1280938010746 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1280938010747 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 1280938010748 Dimer interface [polypeptide binding]; other site 1280938010749 BRCT sequence motif; other site 1280938010750 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1280938010751 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; cd00231 1280938010752 FtsZ protein binding site [polypeptide binding]; other site 1280938010753 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1280938010754 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1280938010755 Walker A/P-loop; other site 1280938010756 ATP binding site [chemical binding]; other site 1280938010757 Q-loop/lid; other site 1280938010758 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1280938010759 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1280938010760 ABC transporter signature motif; other site 1280938010761 Walker B; other site 1280938010762 D-loop; other site 1280938010763 H-loop/switch region; other site 1280938010764 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1280938010765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938010766 DNA-binding site [nucleotide binding]; DNA binding site 1280938010767 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1280938010768 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 1280938010769 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1280938010770 Di-iron ligands [ion binding]; other site 1280938010771 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1280938010772 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 1280938010773 catalytic loop [active] 1280938010774 iron binding site [ion binding]; other site 1280938010775 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1280938010776 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1280938010777 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1280938010778 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1280938010779 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938010780 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1280938010781 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1280938010782 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1280938010783 guanine deaminase; Provisional; Region: PRK09228 1280938010784 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 1280938010785 active site 1280938010786 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1280938010787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938010788 DNA-binding site [nucleotide binding]; DNA binding site 1280938010789 FCD domain; Region: FCD; pfam07729 1280938010790 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1280938010791 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1280938010792 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 1280938010793 active site 1280938010794 homotetramer interface [polypeptide binding]; other site 1280938010795 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1280938010796 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1280938010797 active site 1280938010798 catalytic site [active] 1280938010799 tetramer interface [polypeptide binding]; other site 1280938010800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1280938010801 Allantoicase [Nucleotide transport and metabolism]; Region: Alc; COG4266 1280938010802 Allantoicase repeat; Region: Allantoicase; pfam03561 1280938010803 Allantoicase repeat; Region: Allantoicase; pfam03561 1280938010804 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1280938010805 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1280938010806 Predicted membrane protein [Function unknown]; Region: COG3748 1280938010807 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1280938010808 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938010809 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1280938010810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1280938010811 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938010812 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938010813 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1280938010814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1280938010815 PGAP1-like protein; Region: PGAP1; pfam07819 1280938010816 PAAR motif; Region: PAAR_motif; pfam05488 1280938010817 xanthine permease; Region: pbuX; TIGR03173 1280938010818 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 1280938010819 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1280938010820 active site 1280938010821 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1280938010822 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 1280938010823 FeS/SAM binding site; other site 1280938010824 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1280938010825 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1280938010826 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938010827 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1280938010828 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1280938010829 glyoxylate carboligase; Provisional; Region: PRK11269 1280938010830 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1280938010831 PYR/PP interface [polypeptide binding]; other site 1280938010832 dimer interface [polypeptide binding]; other site 1280938010833 TPP binding site [chemical binding]; other site 1280938010834 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938010835 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 1280938010836 TPP-binding site [chemical binding]; other site 1280938010837 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1280938010838 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1280938010839 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1280938010840 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1280938010841 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1280938010842 MOFRL family; Region: MOFRL; pfam05161 1280938010843 pyruvate kinase; Provisional; Region: PRK06247 1280938010844 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 1280938010845 domain interfaces; other site 1280938010846 active site 1280938010847 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 1280938010848 Ion transport protein; Region: Ion_trans; pfam00520 1280938010849 Ion channel; Region: Ion_trans_2; pfam07885 1280938010850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 1280938010851 conserved hypothetical protein; Region: TIGR02231 1280938010852 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 1280938010853 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 1280938010854 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1280938010855 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1280938010856 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 1280938010857 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 1280938010858 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1280938010859 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1280938010860 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1280938010861 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1280938010862 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1280938010863 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1280938010864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1280938010865 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938010866 Proteobacterial glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK_like_proteobact; cd07794 1280938010867 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1280938010868 N- and C-terminal domain interface [polypeptide binding]; other site 1280938010869 active site 1280938010870 MgATP binding site [chemical binding]; other site 1280938010871 catalytic site [active] 1280938010872 metal binding site [ion binding]; metal-binding site 1280938010873 putative homotetramer interface [polypeptide binding]; other site 1280938010874 putative homodimer interface [polypeptide binding]; other site 1280938010875 putative glycerol binding site [chemical binding]; other site 1280938010876 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1280938010877 homodimer interface [polypeptide binding]; other site 1280938010878 homotetramer interface [polypeptide binding]; other site 1280938010879 active site pocket [active] 1280938010880 cleavage site 1280938010881 Amino acid permease; Region: AA_permease_2; pfam13520 1280938010882 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938010883 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 1280938010884 DNA binding residues [nucleotide binding] 1280938010885 dimerization interface [polypeptide binding]; other site 1280938010886 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1280938010887 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1280938010888 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1280938010889 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 1280938010890 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 1280938010891 catalytic residues [active] 1280938010892 central insert; other site 1280938010893 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1280938010894 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1280938010895 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1280938010896 heme exporter protein CcmC; Region: ccmC; TIGR01191 1280938010897 heme exporter protein CcmB; Region: ccmB; TIGR01190 1280938010898 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1280938010899 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1280938010900 Walker A/P-loop; other site 1280938010901 ATP binding site [chemical binding]; other site 1280938010902 Q-loop/lid; other site 1280938010903 ABC transporter signature motif; other site 1280938010904 Walker B; other site 1280938010905 D-loop; other site 1280938010906 H-loop/switch region; other site 1280938010907 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1280938010908 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1280938010909 short chain dehydrogenase; Provisional; Region: PRK12937 1280938010910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938010911 NAD(P) binding site [chemical binding]; other site 1280938010912 active site 1280938010913 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1280938010914 Predicted transcriptional regulator [Transcription]; Region: COG2378 1280938010915 HTH domain; Region: HTH_11; pfam08279 1280938010916 WYL domain; Region: WYL; pfam13280 1280938010917 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1280938010918 C-terminal domain interface [polypeptide binding]; other site 1280938010919 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938010920 GSH binding site (G-site) [chemical binding]; other site 1280938010921 dimer interface [polypeptide binding]; other site 1280938010922 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1280938010923 N-terminal domain interface [polypeptide binding]; other site 1280938010924 dimer interface [polypeptide binding]; other site 1280938010925 substrate binding pocket (H-site) [chemical binding]; other site 1280938010926 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1280938010927 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 1280938010928 putative CheA interaction surface; other site 1280938010929 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 1280938010930 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1280938010931 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 1280938010932 P-loop; other site 1280938010933 Magnesium ion binding site [ion binding]; other site 1280938010934 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 1280938010935 Magnesium ion binding site [ion binding]; other site 1280938010936 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1280938010937 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1280938010938 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938010939 ligand binding site [chemical binding]; other site 1280938010940 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1280938010941 flagellar motor protein; Reviewed; Region: motC; PRK09109 1280938010942 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1280938010943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938010944 active site 1280938010945 phosphorylation site [posttranslational modification] 1280938010946 intermolecular recognition site; other site 1280938010947 dimerization interface [polypeptide binding]; other site 1280938010948 CheB methylesterase; Region: CheB_methylest; pfam01339 1280938010949 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 1280938010950 putative binding surface; other site 1280938010951 active site 1280938010952 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1280938010953 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1280938010954 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 1280938010955 ATP binding site [chemical binding]; other site 1280938010956 Mg2+ binding site [ion binding]; other site 1280938010957 G-X-G motif; other site 1280938010958 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 1280938010959 Chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheZ; COG3143 1280938010960 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1280938010961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938010962 active site 1280938010963 phosphorylation site [posttranslational modification] 1280938010964 intermolecular recognition site; other site 1280938010965 dimerization interface [polypeptide binding]; other site 1280938010966 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1280938010967 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938010968 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1280938010969 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 1280938010970 DNA binding residues [nucleotide binding] 1280938010971 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1280938010972 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 1280938010973 P-loop; other site 1280938010974 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1280938010975 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 1280938010976 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1280938010977 FHIPEP family; Region: FHIPEP; pfam00771 1280938010978 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1280938010979 Repair protein; Region: Repair_PSII; pfam04536 1280938010980 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1280938010981 Repair protein; Region: Repair_PSII; pfam04536 1280938010982 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1280938010983 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1280938010984 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1280938010985 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1280938010986 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1280938010987 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 1280938010988 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1280938010989 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1280938010990 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1280938010991 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1280938010992 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1280938010993 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 1280938010994 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1280938010995 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1280938010996 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1280938010997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1280938010998 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1280938010999 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 1280938011000 dimer interface [polypeptide binding]; other site 1280938011001 phosphorylation site [posttranslational modification] 1280938011002 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 1280938011003 ATP binding site [chemical binding]; other site 1280938011004 Mg2+ binding site [ion binding]; other site 1280938011005 G-X-G motif; other site 1280938011006 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1280938011007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938011008 active site 1280938011009 phosphorylation site [posttranslational modification] 1280938011010 intermolecular recognition site; other site 1280938011011 dimerization interface [polypeptide binding]; other site 1280938011012 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 1280938011013 DNA binding site [nucleotide binding] 1280938011014 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1280938011015 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938011016 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938011017 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938011018 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1280938011019 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938011020 metal binding site [ion binding]; metal-binding site 1280938011021 active site 1280938011022 I-site; other site 1280938011023 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 1280938011024 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 1280938011025 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1280938011026 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 1280938011027 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 1280938011028 DNA binding residues [nucleotide binding] 1280938011029 dimerization interface [polypeptide binding]; other site 1280938011030 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1280938011031 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1280938011032 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1280938011033 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1280938011034 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1280938011035 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1280938011036 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1280938011037 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1280938011038 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1280938011039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938011040 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938011041 Walker A/P-loop; other site 1280938011042 Walker A/P-loop; other site 1280938011043 ATP binding site [chemical binding]; other site 1280938011044 ATP binding site [chemical binding]; other site 1280938011045 Q-loop/lid; other site 1280938011046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938011047 Q-loop/lid; other site 1280938011048 ABC transporter signature motif; other site 1280938011049 ABC transporter signature motif; other site 1280938011050 Walker B; other site 1280938011051 Walker B; other site 1280938011052 D-loop; other site 1280938011053 H-loop/switch region; other site 1280938011054 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938011055 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1280938011056 DTW domain; Region: DTW; cl01221 1280938011057 PAS domain; Region: PAS_9; pfam13426 1280938011058 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 1280938011059 putative active site [active] 1280938011060 heme pocket [chemical binding]; other site 1280938011061 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 1280938011062 PAS domain; Region: PAS_9; pfam13426 1280938011063 putative active site [active] 1280938011064 heme pocket [chemical binding]; other site 1280938011065 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938011066 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938011067 dimer interface [polypeptide binding]; other site 1280938011068 putative CheW interface [polypeptide binding]; other site 1280938011069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011071 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 1280938011072 dimerization interface [polypeptide binding]; other site 1280938011073 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1280938011074 agmatinase; Region: agmatinase; TIGR01230 1280938011075 oligomer interface [polypeptide binding]; other site 1280938011076 putative active site [active] 1280938011077 Mn binding site [ion binding]; other site 1280938011078 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1280938011079 SnoaL-like domain; Region: SnoaL_3; pfam13474 1280938011080 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1280938011081 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1280938011082 Na binding site [ion binding]; other site 1280938011083 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1280938011084 Na binding site [ion binding]; other site 1280938011085 hypothetical protein; Provisional; Region: PRK07524 1280938011086 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1280938011087 PYR/PP interface [polypeptide binding]; other site 1280938011088 dimer interface [polypeptide binding]; other site 1280938011089 TPP binding site [chemical binding]; other site 1280938011090 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938011091 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 1280938011092 TPP-binding site [chemical binding]; other site 1280938011093 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1280938011094 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938011095 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1280938011096 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011098 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 1280938011099 putative dimerization interface [polypeptide binding]; other site 1280938011100 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1280938011101 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1280938011102 EamA-like transporter family; Region: EamA; pfam00892 1280938011103 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1280938011104 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938011105 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1280938011106 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1280938011107 active site 1280938011108 Zn binding site [ion binding]; other site 1280938011109 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1280938011110 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1280938011111 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938011112 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1280938011113 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 1280938011114 S-adenosylmethionine binding site [chemical binding]; other site 1280938011115 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1280938011116 active site 1280938011117 NTP binding site [chemical binding]; other site 1280938011118 metal binding triad [ion binding]; metal-binding site 1280938011119 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1280938011120 Family description; Region: UvrD_C_2; pfam13538 1280938011121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938011122 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938011123 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1280938011124 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cl12263 1280938011125 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1280938011126 Predicted ester cyclase [General function prediction only]; Region: COG5485 1280938011127 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 1280938011128 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938011129 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938011130 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1280938011131 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1280938011132 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 1280938011133 carboxyltransferase (CT) interaction site; other site 1280938011134 biotinylation site [posttranslational modification]; other site 1280938011135 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1280938011136 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1280938011137 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011138 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011139 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 1280938011140 substrate binding pocket [chemical binding]; other site 1280938011141 dimerization interface [polypeptide binding]; other site 1280938011142 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 1280938011143 active site flap/lid [active] 1280938011144 nucleophilic elbow; other site 1280938011145 catalytic triad [active] 1280938011146 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1280938011147 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1280938011148 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938011149 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938011150 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938011151 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938011152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938011153 active site 1280938011154 phosphorylation site [posttranslational modification] 1280938011155 intermolecular recognition site; other site 1280938011156 dimerization interface [polypeptide binding]; other site 1280938011157 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 1280938011158 DNA binding residues [nucleotide binding] 1280938011159 dimerization interface [polypeptide binding]; other site 1280938011160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938011161 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 1280938011162 dimer interface [polypeptide binding]; other site 1280938011163 phosphorylation site [posttranslational modification] 1280938011164 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1280938011165 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 1280938011166 ATP binding site [chemical binding]; other site 1280938011167 Mg2+ binding site [ion binding]; other site 1280938011168 G-X-G motif; other site 1280938011169 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938011170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938011171 active site 1280938011172 phosphorylation site [posttranslational modification] 1280938011173 intermolecular recognition site; other site 1280938011174 dimerization interface [polypeptide binding]; other site 1280938011175 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1280938011176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938011177 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938011178 short chain dehydrogenase; Provisional; Region: PRK06180 1280938011179 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1280938011180 NADP binding site [chemical binding]; other site 1280938011181 active site 1280938011182 steroid binding site; other site 1280938011183 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1280938011184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938011185 Coenzyme A binding pocket [chemical binding]; other site 1280938011186 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1280938011187 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1280938011188 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1280938011189 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1280938011190 ligand binding site [chemical binding]; other site 1280938011191 NAD binding site [chemical binding]; other site 1280938011192 catalytic site [active] 1280938011193 homodimer interface [polypeptide binding]; other site 1280938011194 Predicted transcriptional regulators [Transcription]; Region: COG1733 1280938011195 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1280938011196 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 1280938011197 3-oxoacyl-(acyl carrier protein) synthase II; Provisional; Region: PRK14691 1280938011198 dimer interface [polypeptide binding]; other site 1280938011199 active site 1280938011200 Y-family of DNA polymerases; Region: PolY; cl12025 1280938011201 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938011202 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1280938011203 Coenzyme A binding pocket [chemical binding]; other site 1280938011204 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1280938011205 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938011206 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1280938011207 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 1280938011208 N-terminal plug; other site 1280938011209 ligand-binding site [chemical binding]; other site 1280938011210 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938011211 FecR protein; Region: FecR; pfam04773 1280938011212 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1280938011213 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 1280938011214 DNA binding residues [nucleotide binding] 1280938011215 multidrug efflux protein; Reviewed; Region: PRK01766 1280938011216 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1280938011217 cation binding site [ion binding]; other site 1280938011218 threonine and homoserine efflux system; Provisional; Region: PRK10532 1280938011219 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 1280938011220 non-specific DNA binding site [nucleotide binding]; other site 1280938011221 salt bridge; other site 1280938011222 sequence-specific DNA binding site [nucleotide binding]; other site 1280938011223 Cupin domain; Region: Cupin_2; pfam07883 1280938011224 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 1280938011225 dimer interface [polypeptide binding]; other site 1280938011226 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 1280938011227 putative deacylase active site [active] 1280938011228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1280938011229 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938011230 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 1280938011231 dimer interface [polypeptide binding]; other site 1280938011232 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1280938011233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938011234 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1280938011235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 1280938011236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1280938011237 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938011238 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 1280938011239 DNA binding residues [nucleotide binding] 1280938011240 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1280938011241 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1280938011242 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1280938011243 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1280938011244 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1280938011245 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938011246 short chain dehydrogenase; Provisional; Region: PRK06523 1280938011247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938011248 NAD(P) binding site [chemical binding]; other site 1280938011249 active site 1280938011250 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1280938011251 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 1280938011252 substrate binding pocket [chemical binding]; other site 1280938011253 membrane-bound complex binding site; other site 1280938011254 hinge residues; other site 1280938011255 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938011256 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 1280938011257 dimer interface [polypeptide binding]; other site 1280938011258 conserved gate region; other site 1280938011259 putative PBP binding loops; other site 1280938011260 ABC-ATPase subunit interface; other site 1280938011261 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 1280938011262 dimer interface [polypeptide binding]; other site 1280938011263 conserved gate region; other site 1280938011264 putative PBP binding loops; other site 1280938011265 ABC-ATPase subunit interface; other site 1280938011266 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1280938011267 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1280938011268 Walker A/P-loop; other site 1280938011269 ATP binding site [chemical binding]; other site 1280938011270 Q-loop/lid; other site 1280938011271 ABC transporter signature motif; other site 1280938011272 Walker B; other site 1280938011273 D-loop; other site 1280938011274 H-loop/switch region; other site 1280938011275 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1280938011276 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1280938011277 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1280938011278 homodimer interface [polypeptide binding]; other site 1280938011279 active site 1280938011280 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1280938011281 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 1280938011282 dimer interface [polypeptide binding]; other site 1280938011283 phosphorylation site [posttranslational modification] 1280938011284 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 1280938011285 ATP binding site [chemical binding]; other site 1280938011286 Mg2+ binding site [ion binding]; other site 1280938011287 G-X-G motif; other site 1280938011288 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938011289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938011290 active site 1280938011291 phosphorylation site [posttranslational modification] 1280938011292 intermolecular recognition site; other site 1280938011293 dimerization interface [polypeptide binding]; other site 1280938011294 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 1280938011295 Walker A motif; other site 1280938011296 ATP binding site [chemical binding]; other site 1280938011297 Walker B motif; other site 1280938011298 arginine finger; other site 1280938011299 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938011300 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 1280938011301 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938011302 FMN binding site [chemical binding]; other site 1280938011303 active site 1280938011304 substrate binding site [chemical binding]; other site 1280938011305 catalytic residue [active] 1280938011306 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1280938011307 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 1280938011308 S-adenosylmethionine binding site [chemical binding]; other site 1280938011309 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1280938011310 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1280938011311 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 1280938011312 Transporter associated domain; Region: CorC_HlyC; smart01091 1280938011313 short chain dehydrogenase; Provisional; Region: PRK09291 1280938011314 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1280938011315 NADP binding site [chemical binding]; other site 1280938011316 active site 1280938011317 steroid binding site; other site 1280938011318 Domain of unknown function (DUF336); Region: DUF336; cl01249 1280938011319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011321 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 1280938011322 putative effector binding pocket; other site 1280938011323 putative dimerization interface [polypeptide binding]; other site 1280938011324 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1280938011325 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 1280938011326 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1280938011327 active site 1280938011328 substrate binding site [chemical binding]; other site 1280938011329 Mg2+ binding site [ion binding]; other site 1280938011330 threonine dehydratase; Reviewed; Region: PRK09224 1280938011331 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 1280938011332 tetramer interface [polypeptide binding]; other site 1280938011333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938011334 catalytic residue [active] 1280938011335 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1280938011336 putative Ile/Val binding site [chemical binding]; other site 1280938011337 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1280938011338 putative Ile/Val binding site [chemical binding]; other site 1280938011339 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1280938011340 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1280938011341 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1280938011342 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 1280938011343 N-terminal plug; other site 1280938011344 ligand-binding site [chemical binding]; other site 1280938011345 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1280938011346 UbiA prenyltransferase family; Region: UbiA; pfam01040 1280938011347 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1280938011348 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1280938011349 Subunit I/III interface [polypeptide binding]; other site 1280938011350 Subunit III/IV interface [polypeptide binding]; other site 1280938011351 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1280938011352 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 1280938011353 D-pathway; other site 1280938011354 Putative ubiquinol binding site [chemical binding]; other site 1280938011355 Low-spin heme (heme b) binding site [chemical binding]; other site 1280938011356 Putative water exit pathway; other site 1280938011357 Binuclear center (heme o3/CuB) [ion binding]; other site 1280938011358 K-pathway; other site 1280938011359 Putative proton exit pathway; other site 1280938011360 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1280938011361 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1280938011362 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1280938011363 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1280938011364 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 1280938011365 putative substrate translocation pore; other site 1280938011366 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938011367 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938011368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1280938011369 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 1280938011370 putative substrate translocation pore; other site 1280938011371 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 1280938011372 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011374 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 1280938011375 putative effector binding pocket; other site 1280938011376 dimerization interface [polypeptide binding]; other site 1280938011377 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1280938011378 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 1280938011379 motif II; other site 1280938011380 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1280938011381 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938011382 catalytic residue [active] 1280938011383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011384 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1280938011385 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 1280938011386 dimerization interface [polypeptide binding]; other site 1280938011387 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1280938011388 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1280938011389 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 1280938011390 putative active site [active] 1280938011391 putative dimer interface [polypeptide binding]; other site 1280938011392 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1280938011393 nucleotide binding site/active site [active] 1280938011394 HIT family signature motif; other site 1280938011395 catalytic residue [active] 1280938011396 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1280938011397 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938011398 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1280938011399 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 1280938011400 Catalytic site [active] 1280938011401 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938011402 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1280938011403 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 1280938011404 N-terminal plug; other site 1280938011405 ligand-binding site [chemical binding]; other site 1280938011406 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938011407 FecR protein; Region: FecR; pfam04773 1280938011408 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1280938011409 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938011410 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1280938011411 DNA binding residues [nucleotide binding] 1280938011412 hypothetical protein; Provisional; Region: PRK05170 1280938011413 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1280938011414 putative metal binding site [ion binding]; other site 1280938011415 putative homodimer interface [polypeptide binding]; other site 1280938011416 putative homotetramer interface [polypeptide binding]; other site 1280938011417 putative homodimer-homodimer interface [polypeptide binding]; other site 1280938011418 putative allosteric switch controlling residues; other site 1280938011419 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1280938011420 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1280938011421 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1280938011422 NAD binding site [chemical binding]; other site 1280938011423 ligand binding site [chemical binding]; other site 1280938011424 catalytic site [active] 1280938011425 YcgL domain; Region: YcgL; pfam05166 1280938011426 ribonuclease D; Region: rnd; TIGR01388 1280938011427 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1280938011428 catalytic site [active] 1280938011429 putative active site [active] 1280938011430 putative substrate binding site [chemical binding]; other site 1280938011431 HRDC domain; Region: HRDC; pfam00570 1280938011432 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1280938011433 Strictosidine synthase; Region: Str_synth; pfam03088 1280938011434 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1280938011435 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 1280938011436 active site residue [active] 1280938011437 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 1280938011438 active site residue [active] 1280938011439 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1280938011440 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938011441 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938011442 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1280938011443 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 1280938011444 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1280938011445 catalytic residues [active] 1280938011446 dimer interface [polypeptide binding]; other site 1280938011447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938011448 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 1280938011449 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1280938011450 MarR family; Region: MarR_2; pfam12802 1280938011451 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1280938011452 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1280938011453 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938011454 active site 1280938011455 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1280938011456 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938011457 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938011458 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1280938011459 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 1280938011460 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1280938011461 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 1280938011462 catalytic core [active] 1280938011463 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1280938011464 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1280938011465 putative dimer interface [polypeptide binding]; other site 1280938011466 active site pocket [active] 1280938011467 putative cataytic base [active] 1280938011468 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 1280938011469 homotrimer interface [polypeptide binding]; other site 1280938011470 Walker A motif; other site 1280938011471 GTP binding site [chemical binding]; other site 1280938011472 Walker B motif; other site 1280938011473 cobyric acid synthase; Provisional; Region: PRK00784 1280938011474 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1280938011475 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1280938011476 catalytic triad [active] 1280938011477 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 1280938011478 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1280938011479 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938011480 catalytic residue [active] 1280938011481 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1280938011482 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1280938011483 FMN binding site [chemical binding]; other site 1280938011484 dimer interface [polypeptide binding]; other site 1280938011485 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1280938011486 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1280938011487 catalytic triad [active] 1280938011488 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1280938011489 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1280938011490 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 1280938011491 homodimer interface [polypeptide binding]; other site 1280938011492 Walker A motif; other site 1280938011493 ATP binding site [chemical binding]; other site 1280938011494 hydroxycobalamin binding site [chemical binding]; other site 1280938011495 Walker B motif; other site 1280938011496 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1280938011497 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 1280938011498 N-terminal plug; other site 1280938011499 ligand-binding site [chemical binding]; other site 1280938011500 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1280938011501 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1280938011502 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1280938011503 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938011504 DNA-binding site [nucleotide binding]; DNA binding site 1280938011505 FCD domain; Region: FCD; pfam07729 1280938011506 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1280938011507 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1280938011508 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938011509 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1280938011510 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1280938011511 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1280938011512 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1280938011513 EamA-like transporter family; Region: EamA; pfam00892 1280938011514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011516 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 1280938011517 Helix-turn-helix domain; Region: HTH_31; pfam13560 1280938011518 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 1280938011519 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1280938011520 putative substrate translocation pore; other site 1280938011521 PAS fold; Region: PAS_4; pfam08448 1280938011522 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 1280938011523 putative active site [active] 1280938011524 heme pocket [chemical binding]; other site 1280938011525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938011526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938011527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938011528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938011529 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 1280938011530 substrate binding pocket [chemical binding]; other site 1280938011531 membrane-bound complex binding site; other site 1280938011532 hinge residues; other site 1280938011533 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 1280938011534 substrate binding site [chemical binding]; other site 1280938011535 Protein of unknown function (DUF521); Region: DUF521; pfam04412 1280938011536 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 1280938011537 substrate binding site [chemical binding]; other site 1280938011538 ligand binding site [chemical binding]; other site 1280938011539 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938011540 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 1280938011541 dimer interface [polypeptide binding]; other site 1280938011542 conserved gate region; other site 1280938011543 putative PBP binding loops; other site 1280938011544 ABC-ATPase subunit interface; other site 1280938011545 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938011546 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 1280938011547 dimer interface [polypeptide binding]; other site 1280938011548 conserved gate region; other site 1280938011549 putative PBP binding loops; other site 1280938011550 ABC-ATPase subunit interface; other site 1280938011551 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1280938011552 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1280938011553 Walker A/P-loop; other site 1280938011554 ATP binding site [chemical binding]; other site 1280938011555 Q-loop/lid; other site 1280938011556 ABC transporter signature motif; other site 1280938011557 Walker B; other site 1280938011558 D-loop; other site 1280938011559 H-loop/switch region; other site 1280938011560 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1280938011561 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1280938011562 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1280938011563 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1280938011564 inhibitor site; inhibition site 1280938011565 active site 1280938011566 dimer interface [polypeptide binding]; other site 1280938011567 catalytic residue [active] 1280938011568 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1280938011569 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1280938011570 dimer interface [polypeptide binding]; other site 1280938011571 NADP binding site [chemical binding]; other site 1280938011572 catalytic residues [active] 1280938011573 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1280938011574 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1280938011575 HAMP domain; Region: HAMP; pfam00672 1280938011576 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938011577 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938011578 dimer interface [polypeptide binding]; other site 1280938011579 putative CheW interface [polypeptide binding]; other site 1280938011580 Protease inhibitor Inh; Region: Inh; pfam02974 1280938011581 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 1280938011582 active site 1280938011583 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1280938011584 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1280938011585 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1280938011586 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938011587 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938011588 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1280938011589 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938011590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938011591 Walker A/P-loop; other site 1280938011592 ATP binding site [chemical binding]; other site 1280938011593 Q-loop/lid; other site 1280938011594 ABC transporter signature motif; other site 1280938011595 Walker B; other site 1280938011596 D-loop; other site 1280938011597 H-loop/switch region; other site 1280938011598 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1280938011599 GAF domain; Region: GAF; pfam01590 1280938011600 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 1280938011601 PAS domain; Region: PAS_9; pfam13426 1280938011602 putative active site [active] 1280938011603 heme pocket [chemical binding]; other site 1280938011604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938011605 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 1280938011606 dimer interface [polypeptide binding]; other site 1280938011607 phosphorylation site [posttranslational modification] 1280938011608 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 1280938011609 ATP binding site [chemical binding]; other site 1280938011610 Mg2+ binding site [ion binding]; other site 1280938011611 G-X-G motif; other site 1280938011612 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938011613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938011614 active site 1280938011615 phosphorylation site [posttranslational modification] 1280938011616 intermolecular recognition site; other site 1280938011617 dimerization interface [polypeptide binding]; other site 1280938011618 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1280938011619 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1280938011620 active site 1280938011621 catalytic residues [active] 1280938011622 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938011623 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938011624 enoyl-CoA hydratase; Provisional; Region: PRK06563 1280938011625 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 1280938011626 substrate binding site [chemical binding]; other site 1280938011627 oxyanion hole (OAH) forming residues; other site 1280938011628 trimer interface [polypeptide binding]; other site 1280938011629 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1280938011630 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1280938011631 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1280938011632 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938011633 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 1280938011634 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1280938011635 putative substrate translocation pore; other site 1280938011636 Cupin domain; Region: Cupin_2; pfam07883 1280938011637 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938011638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938011639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938011640 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1280938011641 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1280938011642 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1280938011643 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938011644 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938011645 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938011646 Phosphotransferase enzyme family; Region: APH; pfam01636 1280938011647 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938011648 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938011649 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1280938011650 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938011651 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1280938011652 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1280938011653 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1280938011654 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938011655 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1280938011656 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1280938011657 putative active site; other site 1280938011658 catalytic triad [active] 1280938011659 putative dimer interface [polypeptide binding]; other site 1280938011660 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1280938011661 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1280938011662 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938011663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011664 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 1280938011665 dimerization interface [polypeptide binding]; other site 1280938011666 substrate binding pocket [chemical binding]; other site 1280938011667 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 1280938011668 dimerization interface [polypeptide binding]; other site 1280938011669 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1280938011670 MltA specific insert domain; Region: MltA; pfam03562 1280938011671 3D domain; Region: 3D; pfam06725 1280938011672 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1280938011673 acyl-activating enzyme (AAE) consensus motif; other site 1280938011674 AMP binding site [chemical binding]; other site 1280938011675 active site 1280938011676 CoA binding site [chemical binding]; other site 1280938011677 Thioesterase domain; Region: Thioesterase; pfam00975 1280938011678 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1280938011679 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1280938011680 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1280938011681 active site 1280938011682 catalytic residues [active] 1280938011683 metal binding site [ion binding]; metal-binding site 1280938011684 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 1280938011685 S-adenosylmethionine binding site [chemical binding]; other site 1280938011686 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1280938011687 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 1280938011688 acyl-activating enzyme (AAE) consensus motif; other site 1280938011689 AMP binding site [chemical binding]; other site 1280938011690 active site 1280938011691 CoA binding site [chemical binding]; other site 1280938011692 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1280938011693 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 1280938011694 active site 1280938011695 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 1280938011696 Ligand Binding Site [chemical binding]; other site 1280938011697 Molecular Tunnel; other site 1280938011698 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 1280938011699 substrate binding pocket [chemical binding]; other site 1280938011700 active site 1280938011701 iron coordination sites [ion binding]; other site 1280938011702 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 1280938011703 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938011704 putative substrate translocation pore; other site 1280938011705 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938011706 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 1280938011707 Pirin-related protein [General function prediction only]; Region: COG1741 1280938011708 Pirin; Region: Pirin; pfam02678 1280938011709 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1280938011710 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1280938011711 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 1280938011712 active site residue [active] 1280938011713 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1280938011714 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1280938011715 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1280938011716 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1280938011717 TrkA-N domain; Region: TrkA_N; pfam02254 1280938011718 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 1280938011719 putative hydrophobic ligand binding site [chemical binding]; other site 1280938011720 Pirin-related protein [General function prediction only]; Region: COG1741 1280938011721 Pirin; Region: Pirin; pfam02678 1280938011722 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1280938011723 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938011724 Predicted flavoprotein [General function prediction only]; Region: COG0431 1280938011725 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1280938011726 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938011727 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 1280938011728 catalytic triad [active] 1280938011729 dimer interface [polypeptide binding]; other site 1280938011730 conserved cis-peptide bond; other site 1280938011731 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011732 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011733 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 1280938011734 putative effector binding pocket; other site 1280938011735 dimerization interface [polypeptide binding]; other site 1280938011736 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1280938011737 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 1280938011738 S-adenosylmethionine binding site [chemical binding]; other site 1280938011739 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1280938011740 NlpC/P60 family; Region: NLPC_P60; pfam00877 1280938011741 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1280938011742 NlpC/P60 family; Region: NLPC_P60; pfam00877 1280938011743 NAD-dependent deacetylase; Provisional; Region: PRK00481 1280938011744 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 1280938011745 NAD+ binding site [chemical binding]; other site 1280938011746 substrate binding site [chemical binding]; other site 1280938011747 Zn binding site [ion binding]; other site 1280938011748 PAS fold; Region: PAS_4; pfam08448 1280938011749 photoactive yellow protein; Region: photo_yellow; TIGR02373 1280938011750 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1280938011751 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 1280938011752 Walker A motif; other site 1280938011753 ATP binding site [chemical binding]; other site 1280938011754 Walker B motif; other site 1280938011755 arginine finger; other site 1280938011756 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1280938011757 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1280938011758 Amidinotransferase; Region: Amidinotransf; cl12043 1280938011759 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1280938011760 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 1280938011761 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1280938011762 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 1280938011763 Ligand Binding Site [chemical binding]; other site 1280938011764 integrase; Provisional; Region: int; PHA02601 1280938011765 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 1280938011766 active site 1280938011767 DNA binding site [nucleotide binding] 1280938011768 Int/Topo IB signature motif; other site 1280938011769 Replication initiation factor; Region: Rep_trans; pfam02486 1280938011770 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 1280938011771 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1280938011772 putative active site [active] 1280938011773 putative NTP binding site [chemical binding]; other site 1280938011774 putative nucleic acid binding site [nucleotide binding]; other site 1280938011775 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1280938011776 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 1280938011777 non-specific DNA binding site [nucleotide binding]; other site 1280938011778 salt bridge; other site 1280938011779 sequence-specific DNA binding site [nucleotide binding]; other site 1280938011780 DNA-J related protein; Region: DNAJ_related; pfam12339 1280938011781 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 1280938011782 HSP70 interaction site [polypeptide binding]; other site 1280938011783 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1280938011784 hypothetical protein; Provisional; Region: PRK04860 1280938011785 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1280938011786 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1280938011787 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1280938011788 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938011789 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938011790 active site 1280938011791 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1280938011792 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1280938011793 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1280938011794 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 1280938011795 C-terminal domain interface [polypeptide binding]; other site 1280938011796 GSH binding site (G-site) [chemical binding]; other site 1280938011797 dimer interface [polypeptide binding]; other site 1280938011798 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1280938011799 dimer interface [polypeptide binding]; other site 1280938011800 N-terminal domain interface [polypeptide binding]; other site 1280938011801 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938011802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011803 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 1280938011804 dimerization interface [polypeptide binding]; other site 1280938011805 substrate binding pocket [chemical binding]; other site 1280938011806 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1280938011807 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1280938011808 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938011809 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938011810 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938011811 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 1280938011812 putative diguanylate cyclase; Provisional; Region: PRK09776 1280938011813 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 1280938011814 putative active site [active] 1280938011815 heme pocket [chemical binding]; other site 1280938011816 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 1280938011817 putative active site [active] 1280938011818 heme pocket [chemical binding]; other site 1280938011819 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 1280938011820 putative active site [active] 1280938011821 heme pocket [chemical binding]; other site 1280938011822 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938011823 metal binding site [ion binding]; metal-binding site 1280938011824 active site 1280938011825 I-site; other site 1280938011826 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 1280938011827 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 1280938011828 dimer interface [polypeptide binding]; other site 1280938011829 phosphorylation site [posttranslational modification] 1280938011830 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 1280938011831 ATP binding site [chemical binding]; other site 1280938011832 G-X-G motif; other site 1280938011833 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1280938011834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938011835 active site 1280938011836 phosphorylation site [posttranslational modification] 1280938011837 intermolecular recognition site; other site 1280938011838 dimerization interface [polypeptide binding]; other site 1280938011839 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 1280938011840 DNA binding site [nucleotide binding] 1280938011841 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1280938011842 Periplasmic nitrate reductase system, NapE component [Energy production and conversion]; Region: NapE; COG4459 1280938011843 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1280938011844 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1280938011845 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1280938011846 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 1280938011847 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1280938011848 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 1280938011849 [4Fe-4S] binding site [ion binding]; other site 1280938011850 molybdopterin cofactor binding site; other site 1280938011851 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 1280938011852 molybdopterin cofactor binding site; other site 1280938011853 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1280938011854 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1280938011855 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1280938011856 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1280938011857 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 1280938011858 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938011859 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1280938011860 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1280938011861 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1280938011862 Lipoxygenase; Region: Lipoxygenase; pfam00305 1280938011863 Alginate lyase; Region: Alginate_lyase2; pfam08787 1280938011864 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1280938011865 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938011866 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1280938011867 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1280938011868 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1280938011869 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 1280938011870 putative ATP binding site [chemical binding]; other site 1280938011871 putative substrate interface [chemical binding]; other site 1280938011872 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1280938011873 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1280938011874 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 1280938011875 active site 1280938011876 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1280938011877 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1280938011878 metal binding site [ion binding]; metal-binding site 1280938011879 dimer interface [polypeptide binding]; other site 1280938011880 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1280938011881 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1280938011882 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 1280938011883 DNA-binding site [nucleotide binding]; DNA binding site 1280938011884 RNA-binding motif; other site 1280938011885 sensor protein RstB; Provisional; Region: PRK10604 1280938011886 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 1280938011887 dimerization interface [polypeptide binding]; other site 1280938011888 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 1280938011889 dimer interface [polypeptide binding]; other site 1280938011890 phosphorylation site [posttranslational modification] 1280938011891 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 1280938011892 ATP binding site [chemical binding]; other site 1280938011893 Mg2+ binding site [ion binding]; other site 1280938011894 G-X-G motif; other site 1280938011895 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1280938011896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938011897 active site 1280938011898 phosphorylation site [posttranslational modification] 1280938011899 intermolecular recognition site; other site 1280938011900 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 1280938011901 DNA binding site [nucleotide binding] 1280938011902 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1280938011903 ATP cone domain; Region: ATP-cone; pfam03477 1280938011904 ATP cone domain; Region: ATP-cone; pfam03477 1280938011905 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1280938011906 active site 1280938011907 dimer interface [polypeptide binding]; other site 1280938011908 catalytic residues [active] 1280938011909 effector binding site; other site 1280938011910 R2 peptide binding site; other site 1280938011911 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1280938011912 dimer interface [polypeptide binding]; other site 1280938011913 putative radical transfer pathway; other site 1280938011914 diiron center [ion binding]; other site 1280938011915 tyrosyl radical; other site 1280938011916 BRO family, N-terminal domain; Region: Bro-N; cl10591 1280938011917 Bacterial self-protective colicin-like immunity; Region: Colicin_immun; pfam09204 1280938011918 Colicin-like bacteriocin tRNase domain; Region: Cloacin; pfam03515 1280938011919 S-type Pyocin; Region: Pyocin_S; pfam06958 1280938011920 Colicin D; Region: Colicin_D; pfam11429 1280938011921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4893 1280938011922 Exotoxin A binding; Region: Exotox-A_bind; pfam09101 1280938011923 Exotoxin A, targeting; Region: Exotox-A_target; pfam09102 1280938011924 Mono-ADP-ribosylating toxins catalyze the transfer of ADP_ribose from NAD+ to eukaryotic Elongation Factor 2, halting protein synthesis. A single molecule of delivered toxin is sufficient to kill a cell. These toxins share mono-ADP-ribosylating activity...; Region: Dipth_tox_like; cd01436 1280938011925 nad+ binding pocket [chemical binding]; other site 1280938011926 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 1280938011927 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1280938011928 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1280938011929 putative active site [active] 1280938011930 metal binding site [ion binding]; metal-binding site 1280938011931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011933 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 1280938011934 dimerization interface [polypeptide binding]; other site 1280938011935 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1280938011936 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 1280938011937 putative substrate translocation pore; other site 1280938011938 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1280938011939 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1280938011940 transcriptional regulator protein; Region: phnR; TIGR03337 1280938011941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938011942 DNA-binding site [nucleotide binding]; DNA binding site 1280938011943 UTRA domain; Region: UTRA; pfam07702 1280938011944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011946 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938011947 dimerization interface [polypeptide binding]; other site 1280938011948 hypothetical protein; Provisional; Region: PRK11171 1280938011949 Cupin domain; Region: Cupin_2; pfam07883 1280938011950 Cupin domain; Region: Cupin_2; pfam07883 1280938011951 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1280938011952 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 1280938011953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011955 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938011956 dimerization interface [polypeptide binding]; other site 1280938011957 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1280938011958 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1280938011959 NAD(P) binding site [chemical binding]; other site 1280938011960 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 1280938011961 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1280938011962 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 1280938011963 DNA binding residues [nucleotide binding] 1280938011964 dimerization interface [polypeptide binding]; other site 1280938011965 chaperone protein HchA; Provisional; Region: PRK04155 1280938011966 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1280938011967 conserved cys residue [active] 1280938011968 Protein of unknown function, DUF393; Region: DUF393; cl01136 1280938011969 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 1280938011970 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938011971 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1280938011972 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1280938011973 Ligand binding site; other site 1280938011974 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 1280938011975 dimer interface [polypeptide binding]; other site 1280938011976 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938011977 Mn binding site [ion binding]; other site 1280938011978 K binding site [ion binding]; other site 1280938011979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938011980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938011981 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 1280938011982 putative effector binding pocket; other site 1280938011983 putative dimerization interface [polypeptide binding]; other site 1280938011984 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 1280938011985 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938011986 active site 1280938011987 catalytic tetrad [active] 1280938011988 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 1280938011989 NAD-dependent deacetylase; Provisional; Region: PRK00481 1280938011990 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 1280938011991 NAD+ binding site [chemical binding]; other site 1280938011992 substrate binding site [chemical binding]; other site 1280938011993 Zn binding site [ion binding]; other site 1280938011994 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1280938011995 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938011996 Zn2+ binding site [ion binding]; other site 1280938011997 Mg2+ binding site [ion binding]; other site 1280938011998 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1280938011999 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 1280938012000 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 1280938012001 active site 1280938012002 catalytic residues [active] 1280938012003 metal binding site [ion binding]; metal-binding site 1280938012004 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1280938012005 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1280938012006 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 1280938012007 dimerization interface [polypeptide binding]; other site 1280938012008 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938012009 metal binding site [ion binding]; metal-binding site 1280938012010 active site 1280938012011 I-site; other site 1280938012012 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938012013 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938012014 ligand binding site [chemical binding]; other site 1280938012015 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1280938012016 S1 domain; Region: S1_2; pfam13509 1280938012017 S1 domain; Region: S1_2; pfam13509 1280938012018 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1280938012019 Sulfatase; Region: Sulfatase; pfam00884 1280938012020 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 1280938012021 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1280938012022 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1280938012023 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938012024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938012025 Walker A/P-loop; other site 1280938012026 ATP binding site [chemical binding]; other site 1280938012027 Q-loop/lid; other site 1280938012028 ABC transporter signature motif; other site 1280938012029 Walker B; other site 1280938012030 D-loop; other site 1280938012031 H-loop/switch region; other site 1280938012032 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1280938012033 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1280938012034 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1280938012035 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1280938012036 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 1280938012037 RNA binding surface [nucleotide binding]; other site 1280938012038 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 1280938012039 active site 1280938012040 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938012041 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938012042 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 1280938012043 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938012044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938012045 metal binding site [ion binding]; metal-binding site 1280938012046 active site 1280938012047 I-site; other site 1280938012048 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 1280938012049 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1280938012050 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1280938012051 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1280938012052 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 1280938012053 Walker A motif/ATP binding site; other site 1280938012054 Walker B motif; other site 1280938012055 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1280938012056 Flagellar assembly protein FliH; Region: FliH; pfam02108 1280938012057 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1280938012058 MgtE intracellular N domain; Region: MgtE_N; smart00924 1280938012059 FliG C-terminal domain; Region: FliG_C; pfam01706 1280938012060 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1280938012061 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1280938012062 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1280938012063 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1280938012064 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938012065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938012066 active site 1280938012067 phosphorylation site [posttranslational modification] 1280938012068 intermolecular recognition site; other site 1280938012069 dimerization interface [polypeptide binding]; other site 1280938012070 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 1280938012071 Walker A motif; other site 1280938012072 ATP binding site [chemical binding]; other site 1280938012073 Walker B motif; other site 1280938012074 arginine finger; other site 1280938012075 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938012076 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938012077 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 1280938012078 putative active site [active] 1280938012079 heme pocket [chemical binding]; other site 1280938012080 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 1280938012081 dimer interface [polypeptide binding]; other site 1280938012082 phosphorylation site [posttranslational modification] 1280938012083 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 1280938012084 ATP binding site [chemical binding]; other site 1280938012085 Mg2+ binding site [ion binding]; other site 1280938012086 G-X-G motif; other site 1280938012087 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938012088 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1280938012089 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 1280938012090 Walker A motif; other site 1280938012091 ATP binding site [chemical binding]; other site 1280938012092 Walker B motif; other site 1280938012093 arginine finger; other site 1280938012094 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938012095 flagellar protein FliS; Validated; Region: fliS; PRK05685 1280938012096 Flagellar protein FliS; Region: FliS; cl00654 1280938012097 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1280938012098 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1280938012099 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1280938012100 FlaG protein; Region: FlaG; pfam03646 1280938012101 flagellin; Reviewed; Region: PRK08869 1280938012102 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1280938012103 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1280938012104 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1280938012105 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1280938012106 active site 1280938012107 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1280938012108 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 1280938012109 active site 1280938012110 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1280938012111 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1280938012112 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1280938012113 putative trimer interface [polypeptide binding]; other site 1280938012114 putative CoA binding site [chemical binding]; other site 1280938012115 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1280938012116 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 1280938012117 [2Fe-2S] cluster binding site [ion binding]; other site 1280938012118 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1280938012119 alpha subunit interface [polypeptide binding]; other site 1280938012120 active site 1280938012121 substrate binding site [chemical binding]; other site 1280938012122 Fe binding site [ion binding]; other site 1280938012123 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 1280938012124 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1280938012125 putative trimer interface [polypeptide binding]; other site 1280938012126 putative CoA binding site [chemical binding]; other site 1280938012127 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938012128 classical (c) SDRs; Region: SDR_c; cd05233 1280938012129 NAD(P) binding site [chemical binding]; other site 1280938012130 active site 1280938012131 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1280938012132 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 1280938012133 dimer interface [polypeptide binding]; other site 1280938012134 active site 1280938012135 CoA binding pocket [chemical binding]; other site 1280938012136 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1280938012137 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1280938012138 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 1280938012139 inhibitor-cofactor binding pocket; inhibition site 1280938012140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938012141 catalytic residue [active] 1280938012142 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1280938012143 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1280938012144 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1280938012145 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1280938012146 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1280938012147 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1280938012148 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1280938012149 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1280938012150 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1280938012151 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1280938012152 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1280938012153 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1280938012154 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1280938012155 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1280938012156 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1280938012157 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1280938012158 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1280938012159 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1280938012160 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1280938012161 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1280938012162 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1280938012163 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1280938012164 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1280938012165 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1280938012166 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1280938012167 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1280938012168 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1280938012169 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1280938012170 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1280938012171 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1280938012172 Uncharacterized small conserved protein [Function unknown]; Region: COG5626 1280938012173 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1280938012174 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 1280938012175 dimerization interface [polypeptide binding]; other site 1280938012176 ligand binding site [chemical binding]; other site 1280938012177 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1280938012178 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 1280938012179 TM-ABC transporter signature motif; other site 1280938012180 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1280938012181 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1280938012182 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 1280938012183 TM-ABC transporter signature motif; other site 1280938012184 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1280938012185 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1280938012186 Walker A/P-loop; other site 1280938012187 ATP binding site [chemical binding]; other site 1280938012188 Q-loop/lid; other site 1280938012189 ABC transporter signature motif; other site 1280938012190 Walker B; other site 1280938012191 D-loop; other site 1280938012192 H-loop/switch region; other site 1280938012193 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 1280938012194 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1280938012195 Walker A/P-loop; other site 1280938012196 ATP binding site [chemical binding]; other site 1280938012197 Q-loop/lid; other site 1280938012198 ABC transporter signature motif; other site 1280938012199 Walker B; other site 1280938012200 D-loop; other site 1280938012201 H-loop/switch region; other site 1280938012202 NMDA receptor-regulated protein 1; Region: NARP1; pfam12569 1280938012203 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 1280938012204 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1280938012205 ATP binding site [chemical binding]; other site 1280938012206 Mg2+ binding site [ion binding]; other site 1280938012207 G-X-G motif; other site 1280938012208 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938012209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938012210 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 1280938012211 putative effector binding pocket; other site 1280938012212 dimerization interface [polypeptide binding]; other site 1280938012213 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1280938012214 putative NAD(P) binding site [chemical binding]; other site 1280938012215 homodimer interface [polypeptide binding]; other site 1280938012216 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1280938012217 Predicted membrane protein [Function unknown]; Region: COG3650 1280938012218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1280938012219 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1280938012220 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 1280938012221 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938012222 catalytic residue [active] 1280938012223 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1280938012224 EamA-like transporter family; Region: EamA; pfam00892 1280938012225 EamA-like transporter family; Region: EamA; pfam00892 1280938012226 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 1280938012227 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1280938012228 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1280938012229 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1280938012230 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1280938012231 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1280938012232 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1280938012233 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1280938012234 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1280938012235 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1280938012236 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1280938012237 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1280938012238 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1280938012239 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1280938012240 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1280938012241 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1280938012242 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1280938012243 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1280938012244 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1280938012245 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1280938012246 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938012247 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938012248 ligand binding site [chemical binding]; other site 1280938012249 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1280938012250 Beta-lactamase; Region: Beta-lactamase; pfam00144 1280938012251 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1280938012252 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1280938012253 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1280938012254 Predicted integral membrane protein [Function unknown]; Region: COG5615 1280938012255 Predicted membrane protein [Function unknown]; Region: COG3776 1280938012256 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938012257 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938012258 ligand binding site [chemical binding]; other site 1280938012259 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938012260 SEC-C motif; Region: SEC-C; pfam02810 1280938012261 hypothetical protein; Provisional; Region: PRK04233 1280938012262 Predicted membrane protein [Function unknown]; Region: COG2860 1280938012263 UPF0126 domain; Region: UPF0126; pfam03458 1280938012264 UPF0126 domain; Region: UPF0126; pfam03458 1280938012265 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 1280938012266 Water Stress and Hypersensitive response; Region: WHy; smart00769 1280938012267 SEC-C motif; Region: SEC-C; pfam02810 1280938012268 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1280938012269 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 1280938012270 C-terminal domain interface [polypeptide binding]; other site 1280938012271 GSH binding site (G-site) [chemical binding]; other site 1280938012272 dimer interface [polypeptide binding]; other site 1280938012273 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1280938012274 N-terminal domain interface [polypeptide binding]; other site 1280938012275 putative dimer interface [polypeptide binding]; other site 1280938012276 active site 1280938012277 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1280938012278 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 1280938012279 active site 1280938012280 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1280938012281 RmuC family; Region: RmuC; pfam02646 1280938012282 RES domain; Region: RES; smart00953 1280938012283 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 1280938012284 salt bridge; other site 1280938012285 sequence-specific DNA binding site [nucleotide binding]; other site 1280938012286 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1280938012287 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938012288 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938012289 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1280938012290 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1280938012291 tetrameric interface [polypeptide binding]; other site 1280938012292 NAD binding site [chemical binding]; other site 1280938012293 catalytic residues [active] 1280938012294 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1280938012295 Double zinc ribbon; Region: DZR; pfam12773 1280938012296 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938012297 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1280938012298 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 1280938012299 FMN binding site [chemical binding]; other site 1280938012300 substrate binding site [chemical binding]; other site 1280938012301 putative catalytic residue [active] 1280938012302 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1280938012303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938012304 NAD(P) binding site [chemical binding]; other site 1280938012305 active site 1280938012306 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1280938012307 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938012308 active site 1280938012309 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1280938012310 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 1280938012311 substrate binding site [chemical binding]; other site 1280938012312 oxyanion hole (OAH) forming residues; other site 1280938012313 trimer interface [polypeptide binding]; other site 1280938012314 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1280938012315 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938012316 active site 1280938012317 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 1280938012318 CoenzymeA binding site [chemical binding]; other site 1280938012319 subunit interaction site [polypeptide binding]; other site 1280938012320 PHB binding site; other site 1280938012321 benzoate transport; Region: 2A0115; TIGR00895 1280938012322 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 1280938012323 putative substrate translocation pore; other site 1280938012324 enoyl-CoA hydratase; Region: PLN02864 1280938012325 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 1280938012326 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1280938012327 dimer interaction site [polypeptide binding]; other site 1280938012328 substrate-binding tunnel; other site 1280938012329 active site 1280938012330 catalytic site [active] 1280938012331 substrate binding site [chemical binding]; other site 1280938012332 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1280938012333 CoA binding domain; Region: CoA_binding_2; pfam13380 1280938012334 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1280938012335 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1280938012336 thiolase; Provisional; Region: PRK06158 1280938012337 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1280938012338 active site 1280938012339 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1280938012340 DUF35 OB-fold domain; Region: DUF35; pfam01796 1280938012341 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1280938012342 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1280938012343 Bacterial transcriptional regulator; Region: IclR; pfam01614 1280938012344 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1280938012345 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 1280938012346 active site 1280938012347 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1280938012348 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1280938012349 ATP binding site [chemical binding]; other site 1280938012350 active site 1280938012351 substrate binding site [chemical binding]; other site 1280938012352 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1280938012353 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1280938012354 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1280938012355 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1280938012356 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1280938012357 dimer interface [polypeptide binding]; other site 1280938012358 active site 1280938012359 catalytic residue [active] 1280938012360 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1280938012361 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1280938012362 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1280938012363 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1280938012364 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 1280938012365 catalytic triad [active] 1280938012366 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1280938012367 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1280938012368 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 1280938012369 CPxP motif; other site 1280938012370 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1280938012371 Peptidase family M48; Region: Peptidase_M48; cl12018 1280938012372 quinolinate synthetase; Provisional; Region: PRK09375 1280938012373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938012374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938012375 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 1280938012376 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1280938012377 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1280938012378 glutamine binding [chemical binding]; other site 1280938012379 catalytic triad [active] 1280938012380 anthranilate synthase component I; Provisional; Region: PRK13564 1280938012381 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1280938012382 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1280938012383 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1280938012384 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 1280938012385 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 1280938012386 dimer interface [polypeptide binding]; other site 1280938012387 active site 1280938012388 CoA binding pocket [chemical binding]; other site 1280938012389 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1280938012390 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1280938012391 active site 1280938012392 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1280938012393 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1280938012394 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1280938012395 Benzoate CoA ligase (BCL) and similar adenylate forming enzymes; Region: BCL_like; cd05919 1280938012396 dimer interface [polypeptide binding]; other site 1280938012397 acyl-activating enzyme (AAE) consensus motif; other site 1280938012398 putative active site [active] 1280938012399 putative AMP binding site [chemical binding]; other site 1280938012400 putative CoA binding site [chemical binding]; other site 1280938012401 chemical substrate binding site [chemical binding]; other site 1280938012402 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1280938012403 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1280938012404 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 1280938012405 DNA binding site [nucleotide binding] 1280938012406 active site 1280938012407 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1280938012408 PapC N-terminal domain; Region: PapC_N; pfam13954 1280938012409 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1280938012410 PapC C-terminal domain; Region: PapC_C; pfam13953 1280938012411 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1280938012412 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1280938012413 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1280938012414 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1280938012415 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 1280938012416 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 1280938012417 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_14; cd04672 1280938012418 nudix motif; other site 1280938012419 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 1280938012420 active site 1280938012421 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1280938012422 nucleophile elbow; other site 1280938012423 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1280938012424 Integrase core domain; Region: rve; pfam00665 1280938012425 Integrase core domain; Region: rve_3; pfam13683 1280938012426 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1280938012427 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1280938012428 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938012429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938012430 Coenzyme A binding pocket [chemical binding]; other site 1280938012431 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1280938012432 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 1280938012433 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1280938012434 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1280938012435 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1280938012436 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1280938012437 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1280938012438 Beta-lactamase; Region: Beta-lactamase; cl17358 1280938012439 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 1280938012440 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 1280938012441 Uncharacterized conserved protein (DUF2365); Region: DUF2365; pfam10157 1280938012442 Putative helicase; Region: TraI_2; pfam07514 1280938012443 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1280938012444 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1280938012445 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1280938012446 active site 1280938012447 catalytic residues [active] 1280938012448 DNA binding site [nucleotide binding] 1280938012449 Int/Topo IB signature motif; other site 1280938012450 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 1280938012451 Ligand Binding Site [chemical binding]; other site 1280938012452 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1280938012453 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 1280938012454 FeS/SAM binding site; other site 1280938012455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1280938012456 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 1280938012457 binding surface 1280938012458 TPR motif; other site 1280938012459 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938012460 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938012461 ligand binding site [chemical binding]; other site 1280938012462 translocation protein TolB; Provisional; Region: tolB; PRK00178 1280938012463 TolB amino-terminal domain; Region: TolB_N; pfam04052 1280938012464 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1280938012465 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1280938012466 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1280938012467 TolA protein; Region: tolA_full; TIGR02794 1280938012468 TolA protein; Region: tolA_full; TIGR02794 1280938012469 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1280938012470 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1280938012471 TolR protein; Region: tolR; TIGR02801 1280938012472 TolQ protein; Region: tolQ; TIGR02796 1280938012473 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 1280938012474 active site 1280938012475 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1280938012476 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 1280938012477 Walker A motif; other site 1280938012478 ATP binding site [chemical binding]; other site 1280938012479 Walker B motif; other site 1280938012480 arginine finger; other site 1280938012481 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1280938012482 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1280938012483 RuvA N terminal domain; Region: RuvA_N; pfam01330 1280938012484 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1280938012485 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 1280938012486 active site 1280938012487 putative DNA-binding cleft [nucleotide binding]; other site 1280938012488 dimer interface [polypeptide binding]; other site 1280938012489 hypothetical protein; Validated; Region: PRK00110 1280938012490 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1280938012491 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 1280938012492 dimer interface [polypeptide binding]; other site 1280938012493 anticodon binding site; other site 1280938012494 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 1280938012495 homodimer interface [polypeptide binding]; other site 1280938012496 motif 1; other site 1280938012497 active site 1280938012498 motif 2; other site 1280938012499 GAD domain; Region: GAD; pfam02938 1280938012500 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 1280938012501 active site 1280938012502 motif 3; other site 1280938012503 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1280938012504 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1280938012505 dimerization interface [polypeptide binding]; other site 1280938012506 DPS ferroxidase diiron center [ion binding]; other site 1280938012507 ion pore; other site 1280938012508 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 1280938012509 DNA-binding site [nucleotide binding]; DNA binding site 1280938012510 RNA-binding motif; other site 1280938012511 hypothetical protein; Provisional; Region: PRK00295 1280938012512 HIT domain; Region: HIT; pfam01230 1280938012513 nucleotide binding site/active site [active] 1280938012514 HIT family signature motif; other site 1280938012515 catalytic residue [active] 1280938012516 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938012517 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 1280938012518 CoenzymeA binding site [chemical binding]; other site 1280938012519 subunit interaction site [polypeptide binding]; other site 1280938012520 PHB binding site; other site 1280938012521 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1280938012522 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 1280938012523 dimer interface [polypeptide binding]; other site 1280938012524 motif 1; other site 1280938012525 active site 1280938012526 motif 2; other site 1280938012527 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 1280938012528 putative deacylase active site [active] 1280938012529 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 1280938012530 active site 1280938012531 motif 3; other site 1280938012532 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 1280938012533 anticodon binding site; other site 1280938012534 acylphosphatase; Provisional; Region: PRK14442 1280938012535 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 1280938012536 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1280938012537 catalytic residues [active] 1280938012538 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1280938012539 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 1280938012540 ArsC family; Region: ArsC; pfam03960 1280938012541 catalytic residues [active] 1280938012542 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1280938012543 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938012544 Predicted membrane protein [Function unknown]; Region: COG3308 1280938012545 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1280938012546 DNA replication initiation factor; Validated; Region: PRK05642 1280938012547 Walker A motif; other site 1280938012548 ATP binding site [chemical binding]; other site 1280938012549 Walker B motif; other site 1280938012550 arginine finger; other site 1280938012551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 1280938012552 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1280938012553 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1280938012554 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 1280938012555 dimerization interface [polypeptide binding]; other site 1280938012556 putative ATP binding site [chemical binding]; other site 1280938012557 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1280938012558 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1280938012559 active site 1280938012560 substrate binding site [chemical binding]; other site 1280938012561 cosubstrate binding site; other site 1280938012562 catalytic site [active] 1280938012563 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1280938012564 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1280938012565 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1280938012566 MarR family; Region: MarR_2; cl17246 1280938012567 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1280938012568 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 1280938012569 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 1280938012570 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1280938012571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 1280938012572 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1280938012573 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1280938012574 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 1280938012575 homodimer interface [polypeptide binding]; other site 1280938012576 metal binding site [ion binding]; metal-binding site 1280938012577 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 1280938012578 homodimer interface [polypeptide binding]; other site 1280938012579 active site 1280938012580 putative chemical substrate binding site [chemical binding]; other site 1280938012581 metal binding site [ion binding]; metal-binding site 1280938012582 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1280938012583 HD domain; Region: HD_4; pfam13328 1280938012584 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1280938012585 synthetase active site [active] 1280938012586 NTP binding site [chemical binding]; other site 1280938012587 metal binding site [ion binding]; metal-binding site 1280938012588 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 1280938012589 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1280938012590 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1280938012591 TRAM domain; Region: TRAM; pfam01938 1280938012592 cysteine synthase B; Region: cysM; TIGR01138 1280938012593 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 1280938012594 dimer interface [polypeptide binding]; other site 1280938012595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938012596 catalytic residue [active] 1280938012597 outer membrane receptor FepA; Provisional; Region: PRK13528 1280938012598 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 1280938012599 N-terminal plug; other site 1280938012600 ligand-binding site [chemical binding]; other site 1280938012601 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938012602 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 1280938012603 dimerization interface [polypeptide binding]; other site 1280938012604 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 1280938012605 dimer interface [polypeptide binding]; other site 1280938012606 phosphorylation site [posttranslational modification] 1280938012607 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 1280938012608 ATP binding site [chemical binding]; other site 1280938012609 G-X-G motif; other site 1280938012610 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938012611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938012612 active site 1280938012613 phosphorylation site [posttranslational modification] 1280938012614 intermolecular recognition site; other site 1280938012615 dimerization interface [polypeptide binding]; other site 1280938012616 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 1280938012617 DNA binding site [nucleotide binding] 1280938012618 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1280938012619 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 1280938012620 dimerization interface [polypeptide binding]; other site 1280938012621 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 1280938012622 dimer interface [polypeptide binding]; other site 1280938012623 phosphorylation site [posttranslational modification] 1280938012624 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 1280938012625 ATP binding site [chemical binding]; other site 1280938012626 Mg2+ binding site [ion binding]; other site 1280938012627 G-X-G motif; other site 1280938012628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938012629 active site 1280938012630 phosphorylation site [posttranslational modification] 1280938012631 intermolecular recognition site; other site 1280938012632 dimerization interface [polypeptide binding]; other site 1280938012633 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 1280938012634 putative binding surface; other site 1280938012635 active site 1280938012636 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1280938012637 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1280938012638 putative ligand binding site [chemical binding]; other site 1280938012639 putative NAD binding site [chemical binding]; other site 1280938012640 catalytic site [active] 1280938012641 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1280938012642 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1280938012643 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1280938012644 Sulfatase; Region: Sulfatase; cl17466 1280938012645 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1280938012646 active site 1280938012647 DNA polymerase IV; Validated; Region: PRK02406 1280938012648 DNA binding site [nucleotide binding] 1280938012649 Replication protein A C terminal; Region: RPA_C; pfam08784 1280938012650 Predicted integral membrane protein [Function unknown]; Region: COG0392 1280938012651 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1280938012652 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1280938012653 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1280938012654 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1280938012655 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1280938012656 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1280938012657 potassium uptake protein; Region: kup; TIGR00794 1280938012658 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1280938012659 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1280938012660 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 1280938012661 FeS/SAM binding site; other site 1280938012662 TRAM domain; Region: TRAM; pfam01938 1280938012663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1280938012664 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1280938012665 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1280938012666 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1280938012667 MgtE intracellular N domain; Region: MgtE_N; smart00924 1280938012668 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 1280938012669 Divalent cation transporter; Region: MgtE; pfam01769 1280938012670 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1280938012671 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1280938012672 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 1280938012673 non-specific DNA binding site [nucleotide binding]; other site 1280938012674 Predicted transcriptional regulator [Transcription]; Region: COG2932 1280938012675 salt bridge; other site 1280938012676 sequence-specific DNA binding site [nucleotide binding]; other site 1280938012677 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 1280938012678 Catalytic site [active] 1280938012679 carbon storage regulator; Provisional; Region: PRK01712 1280938012680 aspartate kinase; Reviewed; Region: PRK06635 1280938012681 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 1280938012682 putative nucleotide binding site [chemical binding]; other site 1280938012683 putative catalytic residues [active] 1280938012684 putative Mg ion binding site [ion binding]; other site 1280938012685 putative aspartate binding site [chemical binding]; other site 1280938012686 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 1280938012687 putative allosteric regulatory site; other site 1280938012688 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 1280938012689 putative allosteric regulatory residue; other site 1280938012690 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1280938012691 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 1280938012692 motif 1; other site 1280938012693 active site 1280938012694 motif 2; other site 1280938012695 motif 3; other site 1280938012696 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1280938012697 DHHA1 domain; Region: DHHA1; pfam02272 1280938012698 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1280938012699 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 1280938012700 tetramer interface [polypeptide binding]; other site 1280938012701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938012702 catalytic residue [active] 1280938012703 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1280938012704 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1280938012705 putative active site [active] 1280938012706 Zn binding site [ion binding]; other site 1280938012707 succinylarginine dihydrolase; Provisional; Region: PRK13281 1280938012708 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1280938012709 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1280938012710 NAD(P) binding site [chemical binding]; other site 1280938012711 catalytic residues [active] 1280938012712 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1280938012713 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 1280938012714 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1280938012715 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1280938012716 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1280938012717 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 1280938012718 inhibitor-cofactor binding pocket; inhibition site 1280938012719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938012720 catalytic residue [active] 1280938012721 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1280938012722 conserved cys residue [active] 1280938012723 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938012724 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938012725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938012726 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1280938012727 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1280938012728 Walker A/P-loop; other site 1280938012729 ATP binding site [chemical binding]; other site 1280938012730 Q-loop/lid; other site 1280938012731 ABC transporter signature motif; other site 1280938012732 Walker B; other site 1280938012733 D-loop; other site 1280938012734 H-loop/switch region; other site 1280938012735 Predicted deacylase [General function prediction only]; Region: COG3608 1280938012736 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1280938012737 active site 1280938012738 Zn binding site [ion binding]; other site 1280938012739 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 1280938012740 dimer interface [polypeptide binding]; other site 1280938012741 conserved gate region; other site 1280938012742 putative PBP binding loops; other site 1280938012743 ABC-ATPase subunit interface; other site 1280938012744 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938012745 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 1280938012746 dimer interface [polypeptide binding]; other site 1280938012747 conserved gate region; other site 1280938012748 putative PBP binding loops; other site 1280938012749 ABC-ATPase subunit interface; other site 1280938012750 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1280938012751 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 1280938012752 substrate binding pocket [chemical binding]; other site 1280938012753 membrane-bound complex binding site; other site 1280938012754 hinge residues; other site 1280938012755 acetyl-CoA synthetase; Provisional; Region: PRK00174 1280938012756 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1280938012757 active site 1280938012758 CoA binding site [chemical binding]; other site 1280938012759 acyl-activating enzyme (AAE) consensus motif; other site 1280938012760 AMP binding site [chemical binding]; other site 1280938012761 acetate binding site [chemical binding]; other site 1280938012762 DctM-like transporters; Region: DctM; pfam06808 1280938012763 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1280938012764 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1280938012765 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1280938012766 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1280938012767 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1280938012768 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1280938012769 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1280938012770 MmgE/PrpD family; Region: MmgE_PrpD; pfam03972 1280938012771 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 1280938012772 dimer interface [polypeptide binding]; other site 1280938012773 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938012774 metal binding site [ion binding]; metal-binding site 1280938012775 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938012776 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938012777 active site 1280938012778 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1280938012779 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 1280938012780 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 1280938012781 active site 2 [active] 1280938012782 active site 1 [active] 1280938012783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938012784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938012785 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1280938012786 putative dimerization interface [polypeptide binding]; other site 1280938012787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938012788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938012789 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 1280938012790 putative effector binding pocket; other site 1280938012791 dimerization interface [polypeptide binding]; other site 1280938012792 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1280938012793 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1280938012794 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1280938012795 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1280938012796 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1280938012797 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1280938012798 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 1280938012799 putative active site [active] 1280938012800 heme pocket [chemical binding]; other site 1280938012801 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 1280938012802 Walker A motif; other site 1280938012803 ATP binding site [chemical binding]; other site 1280938012804 Walker B motif; other site 1280938012805 arginine finger; other site 1280938012806 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 1280938012807 cofactor binding site; other site 1280938012808 metal binding site [ion binding]; metal-binding site 1280938012809 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 1280938012810 aromatic arch; other site 1280938012811 DCoH dimer interaction site [polypeptide binding]; other site 1280938012812 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1280938012813 DCoH tetramer interaction site [polypeptide binding]; other site 1280938012814 substrate binding site [chemical binding]; other site 1280938012815 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1280938012816 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 1280938012817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938012818 homodimer interface [polypeptide binding]; other site 1280938012819 catalytic residue [active] 1280938012820 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1280938012821 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1280938012822 hypothetical protein; Provisional; Region: PRK09256 1280938012823 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1280938012824 lysozyme inhibitor; Provisional; Region: PRK13792 1280938012825 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1280938012826 aromatic amino acid transporter; Provisional; Region: PRK10238 1280938012827 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1280938012828 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1280938012829 dimer interface [polypeptide binding]; other site 1280938012830 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1280938012831 active site 1280938012832 Fe binding site [ion binding]; other site 1280938012833 Cupin domain; Region: Cupin_2; cl17218 1280938012834 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938012835 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938012836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938012837 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 1280938012838 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1280938012839 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1280938012840 putative NAD(P) binding site [chemical binding]; other site 1280938012841 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 1280938012842 PAS domain S-box; Region: sensory_box; TIGR00229 1280938012843 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 1280938012844 putative active site [active] 1280938012845 heme pocket [chemical binding]; other site 1280938012846 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938012847 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938012848 metal binding site [ion binding]; metal-binding site 1280938012849 active site 1280938012850 I-site; other site 1280938012851 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 1280938012852 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938012853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938012854 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1280938012855 Walker A/P-loop; other site 1280938012856 ATP binding site [chemical binding]; other site 1280938012857 Q-loop/lid; other site 1280938012858 ABC transporter signature motif; other site 1280938012859 Walker B; other site 1280938012860 D-loop; other site 1280938012861 H-loop/switch region; other site 1280938012862 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1280938012863 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 1280938012864 catalytic residues [active] 1280938012865 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1280938012866 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1280938012867 active site residue [active] 1280938012868 BolA-like protein; Region: BolA; cl00386 1280938012869 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1280938012870 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 1280938012871 fumarate hydratase; Provisional; Region: PRK12425 1280938012872 Class II fumarases; Region: Fumarase_classII; cd01362 1280938012873 active site 1280938012874 tetramer interface [polypeptide binding]; other site 1280938012875 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1280938012876 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938012877 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 1280938012878 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1280938012879 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1280938012880 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 1280938012881 tetramer interface [polypeptide binding]; other site 1280938012882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938012883 catalytic residue [active] 1280938012884 MAPEG family; Region: MAPEG; pfam01124 1280938012885 thioredoxin reductase; Provisional; Region: PRK10262 1280938012886 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938012887 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938012888 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1280938012889 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 1280938012890 dimer interface [polypeptide binding]; other site 1280938012891 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1280938012892 catalytic triad [active] 1280938012893 peroxidatic and resolving cysteines [active] 1280938012894 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 1280938012895 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 1280938012896 dimerization interface [polypeptide binding]; other site 1280938012897 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 1280938012898 PAS domain; Region: PAS_9; pfam13426 1280938012899 putative active site [active] 1280938012900 heme pocket [chemical binding]; other site 1280938012901 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938012902 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938012903 metal binding site [ion binding]; metal-binding site 1280938012904 active site 1280938012905 I-site; other site 1280938012906 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1280938012907 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; pfam04734 1280938012908 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1280938012909 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1280938012910 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1280938012911 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1280938012912 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 1280938012913 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938012914 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 1280938012915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1280938012916 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1280938012917 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938012918 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 1280938012919 putative active site [active] 1280938012920 putative FMN binding site [chemical binding]; other site 1280938012921 putative substrate binding site [chemical binding]; other site 1280938012922 putative catalytic residue [active] 1280938012923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938012924 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938012925 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 1280938012926 catalytic residues [active] 1280938012927 dimer interface [polypeptide binding]; other site 1280938012928 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1280938012929 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1280938012930 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1280938012931 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1280938012932 propionate/acetate kinase; Provisional; Region: PRK12379 1280938012933 phosphate acetyltransferase; Reviewed; Region: PRK05632 1280938012934 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 1280938012935 DRTGG domain; Region: DRTGG; pfam07085 1280938012936 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1280938012937 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1280938012938 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1280938012939 putative acyl-acceptor binding pocket; other site 1280938012940 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938012941 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938012942 ligand binding site [chemical binding]; other site 1280938012943 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1280938012944 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938012945 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938012946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938012947 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1280938012948 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1280938012949 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938012950 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1280938012951 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1280938012952 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938012953 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1280938012954 PAAR motif; Region: PAAR_motif; cl15808 1280938012955 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1280938012956 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1280938012957 Helix-turn-helix domain; Region: HTH_37; pfam13744 1280938012958 non-specific DNA binding site [nucleotide binding]; other site 1280938012959 salt bridge; other site 1280938012960 sequence-specific DNA binding site [nucleotide binding]; other site 1280938012961 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1280938012962 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 1280938012963 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938012964 putative metal binding site [ion binding]; other site 1280938012965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938012966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938012967 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 1280938012968 putative dimerization interface [polypeptide binding]; other site 1280938012969 cell density-dependent motility repressor; Provisional; Region: PRK10082 1280938012970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938012971 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 1280938012972 dimerization interface [polypeptide binding]; other site 1280938012973 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1280938012974 homotrimer interaction site [polypeptide binding]; other site 1280938012975 putative active site [active] 1280938012976 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1280938012977 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 1280938012978 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938012979 catalytic residue [active] 1280938012980 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 1280938012981 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 1280938012982 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938012983 putative substrate translocation pore; other site 1280938012984 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1280938012985 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 1280938012986 active site 1280938012987 motif I; other site 1280938012988 motif II; other site 1280938012989 manganese transport protein MntH; Reviewed; Region: PRK00701 1280938012990 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1280938012991 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 1280938012992 putative hydrophobic ligand binding site [chemical binding]; other site 1280938012993 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1280938012994 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 1280938012995 amidase catalytic site [active] 1280938012996 Zn binding residues [ion binding]; other site 1280938012997 substrate binding site [chemical binding]; other site 1280938012998 Predicted membrane protein [Function unknown]; Region: COG4270 1280938012999 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 1280938013000 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938013001 active site 1280938013002 catalytic tetrad [active] 1280938013003 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 1280938013004 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938013005 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1280938013006 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1280938013007 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1280938013008 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1280938013009 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1280938013010 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 1280938013011 ATP binding site [chemical binding]; other site 1280938013012 putative Mg++ binding site [ion binding]; other site 1280938013013 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 1280938013014 nucleotide binding region [chemical binding]; other site 1280938013015 ATP-binding site [chemical binding]; other site 1280938013016 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938013017 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 1280938013018 S-adenosylmethionine binding site [chemical binding]; other site 1280938013019 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1280938013020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938013021 DNA-binding site [nucleotide binding]; DNA binding site 1280938013022 FCD domain; Region: FCD; pfam07729 1280938013023 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1280938013024 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 1280938013025 tetramer interface [polypeptide binding]; other site 1280938013026 active site 1280938013027 Mg2+/Mn2+ binding site [ion binding]; other site 1280938013028 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1280938013029 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 1280938013030 dimer interface [polypeptide binding]; other site 1280938013031 active site 1280938013032 citrylCoA binding site [chemical binding]; other site 1280938013033 oxalacetate/citrate binding site [chemical binding]; other site 1280938013034 coenzyme A binding site [chemical binding]; other site 1280938013035 catalytic triad [active] 1280938013036 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1280938013037 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1280938013038 substrate binding site [chemical binding]; other site 1280938013039 ligand binding site [chemical binding]; other site 1280938013040 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 1280938013041 substrate binding site [chemical binding]; other site 1280938013042 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1280938013043 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1280938013044 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1280938013045 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938013046 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938013047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013048 Predicted permeases [General function prediction only]; Region: COG0730 1280938013049 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1280938013050 Spore germination protein; Region: Spore_permease; cl17796 1280938013051 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938013052 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 1280938013053 S-adenosylmethionine binding site [chemical binding]; other site 1280938013054 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1280938013055 Transglycosylase; Region: Transgly; cl17702 1280938013056 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1280938013057 Predicted ATPase [General function prediction only]; Region: COG4637 1280938013058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938013059 Walker A/P-loop; other site 1280938013060 ATP binding site [chemical binding]; other site 1280938013061 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1280938013062 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1280938013063 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938013064 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938013065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938013066 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 1280938013067 dimerization interface [polypeptide binding]; other site 1280938013068 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1280938013069 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1280938013070 Na binding site [ion binding]; other site 1280938013071 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 1280938013072 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1280938013073 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1280938013074 Glutamate binding site [chemical binding]; other site 1280938013075 NAD binding site [chemical binding]; other site 1280938013076 catalytic residues [active] 1280938013077 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1280938013078 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 1280938013079 N-terminal plug; other site 1280938013080 ligand-binding site [chemical binding]; other site 1280938013081 Cupin domain; Region: Cupin_2; cl17218 1280938013082 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938013083 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013084 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013085 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1280938013086 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 1280938013087 Walker A motif; other site 1280938013088 ATP binding site [chemical binding]; other site 1280938013089 Walker B motif; other site 1280938013090 arginine finger; other site 1280938013091 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1280938013092 Predicted secreted protein [Function unknown]; Region: COG5513 1280938013093 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1280938013094 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 1280938013095 membrane-bound complex binding site; other site 1280938013096 hinge residues; other site 1280938013097 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938013098 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 1280938013099 S-adenosylmethionine binding site [chemical binding]; other site 1280938013100 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938013101 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 1280938013102 S-adenosylmethionine binding site [chemical binding]; other site 1280938013103 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 1280938013104 active site 1280938013105 hydrophilic channel; other site 1280938013106 dimerization interface [polypeptide binding]; other site 1280938013107 catalytic residues [active] 1280938013108 active site lid [active] 1280938013109 Recombination protein O N terminal; Region: RecO_N; pfam11967 1280938013110 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1280938013111 Recombination protein O C terminal; Region: RecO_C; pfam02565 1280938013112 GTPase Era; Reviewed; Region: era; PRK00089 1280938013113 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1280938013114 G1 box; other site 1280938013115 GTP/Mg2+ binding site [chemical binding]; other site 1280938013116 Switch I region; other site 1280938013117 G2 box; other site 1280938013118 Switch II region; other site 1280938013119 G3 box; other site 1280938013120 G4 box; other site 1280938013121 G5 box; other site 1280938013122 KH domain; Region: KH_2; pfam07650 1280938013123 ribonuclease III; Reviewed; Region: rnc; PRK00102 1280938013124 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 1280938013125 dimerization interface [polypeptide binding]; other site 1280938013126 active site 1280938013127 metal binding site [ion binding]; metal-binding site 1280938013128 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 1280938013129 dsRNA binding site [nucleotide binding]; other site 1280938013130 signal peptidase I; Provisional; Region: PRK10861 1280938013131 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 1280938013132 Catalytic site [active] 1280938013133 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 1280938013134 GTP-binding protein LepA; Provisional; Region: PRK05433 1280938013135 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1280938013136 G1 box; other site 1280938013137 putative GEF interaction site [polypeptide binding]; other site 1280938013138 GTP/Mg2+ binding site [chemical binding]; other site 1280938013139 Switch I region; other site 1280938013140 G2 box; other site 1280938013141 G3 box; other site 1280938013142 Switch II region; other site 1280938013143 G4 box; other site 1280938013144 G5 box; other site 1280938013145 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 1280938013146 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 1280938013147 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1280938013148 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1280938013149 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1280938013150 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 1280938013151 protein binding site [polypeptide binding]; other site 1280938013152 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 1280938013153 protein binding site [polypeptide binding]; other site 1280938013154 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 1280938013155 MucB/RseB family; Region: MucB_RseB; pfam03888 1280938013156 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1280938013157 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1280938013158 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1280938013159 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1280938013160 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1280938013161 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938013162 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 1280938013163 DNA binding residues [nucleotide binding] 1280938013164 L-aspartate oxidase; Provisional; Region: PRK09077 1280938013165 L-aspartate oxidase; Provisional; Region: PRK06175 1280938013166 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1280938013167 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1280938013168 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1280938013169 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1280938013170 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1280938013171 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1280938013172 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938013173 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 1280938013174 dimer interface [polypeptide binding]; other site 1280938013175 phosphorylation site [posttranslational modification] 1280938013176 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 1280938013177 ATP binding site [chemical binding]; other site 1280938013178 G-X-G motif; other site 1280938013179 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1280938013180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938013181 active site 1280938013182 phosphorylation site [posttranslational modification] 1280938013183 intermolecular recognition site; other site 1280938013184 dimerization interface [polypeptide binding]; other site 1280938013185 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 1280938013186 DNA binding site [nucleotide binding] 1280938013187 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938013188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1280938013189 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1280938013190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1280938013191 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1280938013192 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1280938013193 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1280938013194 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1280938013195 ligand binding site [chemical binding]; other site 1280938013196 active site 1280938013197 UGI interface [polypeptide binding]; other site 1280938013198 catalytic site [active] 1280938013199 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 1280938013200 VanW like protein; Region: VanW; pfam04294 1280938013201 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938013202 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938013203 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013205 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1280938013206 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1280938013207 tetrameric interface [polypeptide binding]; other site 1280938013208 NAD binding site [chemical binding]; other site 1280938013209 catalytic residues [active] 1280938013210 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938013211 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1280938013212 substrate binding pocket [chemical binding]; other site 1280938013213 FAD binding site [chemical binding]; other site 1280938013214 catalytic base [active] 1280938013215 enoyl-CoA hydratase; Provisional; Region: PRK09076 1280938013216 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 1280938013217 substrate binding site [chemical binding]; other site 1280938013218 oxyanion hole (OAH) forming residues; other site 1280938013219 trimer interface [polypeptide binding]; other site 1280938013220 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1280938013221 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 1280938013222 substrate binding site [chemical binding]; other site 1280938013223 oxyanion hole (OAH) forming residues; other site 1280938013224 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1280938013225 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1280938013226 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1280938013227 Ion channel; Region: Ion_trans_2; pfam07885 1280938013228 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1280938013229 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1280938013230 NAD binding site [chemical binding]; other site 1280938013231 substrate binding site [chemical binding]; other site 1280938013232 putative active site [active] 1280938013233 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1280938013234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1280938013235 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1280938013236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938013237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938013238 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938013239 dimerization interface [polypeptide binding]; other site 1280938013240 Predicted membrane protein [Function unknown]; Region: COG3776 1280938013241 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1280938013242 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1280938013243 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 1280938013244 RNA binding surface [nucleotide binding]; other site 1280938013245 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1280938013246 active site 1280938013247 uracil binding [chemical binding]; other site 1280938013248 hypothetical protein; Provisional; Region: PRK06132 1280938013249 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1280938013250 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1280938013251 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938013252 integrase; Provisional; Region: int; PHA02601 1280938013253 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 1280938013254 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 1280938013255 dimer interface [polypeptide binding]; other site 1280938013256 active site 1280938013257 catalytic residues [active] 1280938013258 Int/Topo IB signature motif; other site 1280938013259 Replication initiation factor; Region: Rep_trans; pfam02486 1280938013260 putative assembly protein; Region: PHA00350 1280938013261 Zonular occludens toxin (Zot); Region: Zot; cl17485 1280938013262 hypothetical protein; Region: PHA01159 1280938013263 Helix-turn-helix domain; Region: HTH_17; cl17695 1280938013264 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1280938013265 hypothetical protein; Provisional; Region: PRK13687 1280938013266 putative acetyltransferase; Provisional; Region: PRK03624 1280938013267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938013268 Coenzyme A binding pocket [chemical binding]; other site 1280938013269 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938013270 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1280938013271 dimer interface [polypeptide binding]; other site 1280938013272 active site 1280938013273 metal binding site [ion binding]; metal-binding site 1280938013274 glutathione binding site [chemical binding]; other site 1280938013275 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1280938013276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938013277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938013278 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 1280938013279 dimerization interface [polypeptide binding]; other site 1280938013280 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 1280938013281 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1280938013282 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 1280938013283 trimer interface [polypeptide binding]; other site 1280938013284 active site 1280938013285 substrate binding site [chemical binding]; other site 1280938013286 CoA binding site [chemical binding]; other site 1280938013287 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1280938013288 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 1280938013289 active site 1280938013290 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 1280938013291 trimer interface [polypeptide binding]; other site 1280938013292 active site 1280938013293 substrate binding site [chemical binding]; other site 1280938013294 CoA binding site [chemical binding]; other site 1280938013295 amidase; Provisional; Region: PRK07042 1280938013296 Amidase; Region: Amidase; pfam01425 1280938013297 citrate-proton symporter; Provisional; Region: PRK15075 1280938013298 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 1280938013299 putative substrate translocation pore; other site 1280938013300 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1280938013301 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1280938013302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938013303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938013304 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1280938013305 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1280938013306 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1280938013307 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1280938013308 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1280938013309 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1280938013310 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1280938013311 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1280938013312 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 1280938013313 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1280938013314 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1280938013315 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1280938013316 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1280938013317 Surface antigen; Region: Bac_surface_Ag; pfam01103 1280938013318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1280938013319 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1280938013320 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1280938013321 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1280938013322 type II secretion system protein F; Region: GspF; TIGR02120 1280938013323 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938013324 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938013325 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1280938013326 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 1280938013327 Walker A motif; other site 1280938013328 ATP binding site [chemical binding]; other site 1280938013329 Walker B motif; other site 1280938013330 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938013331 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938013332 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938013333 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1280938013334 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938013335 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 1280938013336 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1280938013337 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 1280938013338 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1280938013339 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1280938013340 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1280938013341 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1280938013342 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1280938013343 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1280938013344 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1280938013345 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1280938013346 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1280938013347 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1280938013348 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938013349 FecR protein; Region: FecR; pfam04773 1280938013350 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1280938013351 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 1280938013352 DNA binding residues [nucleotide binding] 1280938013353 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938013354 TonB C terminal; Region: TonB_2; pfam13103 1280938013355 Heme oxygenase [Inorganic ion transport and metabolism]; Region: HemO; COG3230 1280938013356 heme binding pocket [chemical binding]; other site 1280938013357 heme ligand [chemical binding]; other site 1280938013358 Cell division inhibitor SulA; Region: SulA; cl01880 1280938013359 DNA Polymerase Y-family; Region: PolY_like; cd03468 1280938013360 active site 1280938013361 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1280938013362 DNA binding site [nucleotide binding] 1280938013363 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1280938013364 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1280938013365 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1280938013366 putative active site [active] 1280938013367 putative PHP Thumb interface [polypeptide binding]; other site 1280938013368 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 1280938013369 generic binding surface II; other site 1280938013370 generic binding surface I; other site 1280938013371 exonuclease subunit SbcD; Provisional; Region: PRK10966 1280938013372 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1280938013373 active site 1280938013374 metal binding site [ion binding]; metal-binding site 1280938013375 DNA binding site [nucleotide binding] 1280938013376 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1280938013377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938013378 AAA domain; Region: AAA_23; pfam13476 1280938013379 Walker A/P-loop; other site 1280938013380 ATP binding site [chemical binding]; other site 1280938013381 Q-loop/lid; other site 1280938013382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938013383 ABC transporter signature motif; other site 1280938013384 Walker B; other site 1280938013385 D-loop; other site 1280938013386 H-loop/switch region; other site 1280938013387 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1280938013388 AAA domain; Region: AAA_30; pfam13604 1280938013389 Family description; Region: UvrD_C_2; pfam13538 1280938013390 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1280938013391 Family description; Region: UvrD_C_2; pfam13538 1280938013392 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1280938013393 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1280938013394 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1280938013395 EamA-like transporter family; Region: EamA; pfam00892 1280938013396 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938013397 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938013398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013399 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1280938013400 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1280938013401 Chromate transporter; Region: Chromate_transp; pfam02417 1280938013402 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938013403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938013404 dimer interface [polypeptide binding]; other site 1280938013405 putative CheW interface [polypeptide binding]; other site 1280938013406 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1280938013407 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1280938013408 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 1280938013409 PAS fold; Region: PAS_3; pfam08447 1280938013410 putative active site [active] 1280938013411 heme pocket [chemical binding]; other site 1280938013412 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 1280938013413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938013414 putative active site [active] 1280938013415 heme pocket [chemical binding]; other site 1280938013416 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 1280938013417 dimer interface [polypeptide binding]; other site 1280938013418 phosphorylation site [posttranslational modification] 1280938013419 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 1280938013420 ATP binding site [chemical binding]; other site 1280938013421 Mg2+ binding site [ion binding]; other site 1280938013422 G-X-G motif; other site 1280938013423 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1280938013424 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1280938013425 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938013426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938013427 active site 1280938013428 phosphorylation site [posttranslational modification] 1280938013429 intermolecular recognition site; other site 1280938013430 dimerization interface [polypeptide binding]; other site 1280938013431 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 1280938013432 DNA binding residues [nucleotide binding] 1280938013433 dimerization interface [polypeptide binding]; other site 1280938013434 Predicted membrane protein [Function unknown]; Region: COG4655 1280938013435 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1280938013436 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 1280938013437 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1280938013438 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938013439 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1280938013440 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938013441 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1280938013442 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1280938013443 ATP binding site [chemical binding]; other site 1280938013444 Walker A motif; other site 1280938013445 hexamer interface [polypeptide binding]; other site 1280938013446 Walker B motif; other site 1280938013447 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1280938013448 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 1280938013449 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1280938013450 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1280938013451 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938013452 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1280938013453 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1280938013454 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1280938013455 Cache domain; Region: Cache_1; pfam02743 1280938013456 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 1280938013457 dimerization interface [polypeptide binding]; other site 1280938013458 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938013459 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938013460 dimer interface [polypeptide binding]; other site 1280938013461 putative CheW interface [polypeptide binding]; other site 1280938013462 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1280938013463 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 1280938013464 Cache domain; Region: Cache_1; pfam02743 1280938013465 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 1280938013466 dimerization interface [polypeptide binding]; other site 1280938013467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938013468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938013469 dimer interface [polypeptide binding]; other site 1280938013470 putative CheW interface [polypeptide binding]; other site 1280938013471 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 1280938013472 Cache domain; Region: Cache_1; pfam02743 1280938013473 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 1280938013474 dimerization interface [polypeptide binding]; other site 1280938013475 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938013476 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938013477 dimer interface [polypeptide binding]; other site 1280938013478 putative CheW interface [polypeptide binding]; other site 1280938013479 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938013480 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 1280938013481 Predicted deacetylase [General function prediction only]; Region: COG3233 1280938013482 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1280938013483 putative active site [active] 1280938013484 putative Zn binding site [ion binding]; other site 1280938013485 Predicted integral membrane protein [Function unknown]; Region: COG0392 1280938013486 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1280938013487 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1280938013488 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1280938013489 putative active site [active] 1280938013490 putative substrate binding site [chemical binding]; other site 1280938013491 putative cosubstrate binding site; other site 1280938013492 catalytic site [active] 1280938013493 exonuclease I; Provisional; Region: sbcB; PRK11779 1280938013494 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1280938013495 active site 1280938013496 catalytic site [active] 1280938013497 substrate binding site [chemical binding]; other site 1280938013498 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1280938013499 Protein of unknown function (DUF975); Region: DUF975; cl10504 1280938013500 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1280938013501 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 1280938013502 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1280938013503 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 1280938013504 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1280938013505 Walker A motif; other site 1280938013506 ATP binding site [chemical binding]; other site 1280938013507 Walker B motif; other site 1280938013508 arginine finger; other site 1280938013509 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1280938013510 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 1280938013511 metal ion-dependent adhesion site (MIDAS); other site 1280938013512 PilZ domain; Region: PilZ; pfam07238 1280938013513 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1280938013514 universal stress protein UspE; Provisional; Region: PRK11175 1280938013515 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 1280938013516 Ligand Binding Site [chemical binding]; other site 1280938013517 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 1280938013518 Ligand Binding Site [chemical binding]; other site 1280938013519 pyruvate kinase; Provisional; Region: PRK05826 1280938013520 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 1280938013521 domain interfaces; other site 1280938013522 active site 1280938013523 enoyl-CoA hydratase; Provisional; Region: PRK06688 1280938013524 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 1280938013525 substrate binding site [chemical binding]; other site 1280938013526 oxyanion hole (OAH) forming residues; other site 1280938013527 trimer interface [polypeptide binding]; other site 1280938013528 hypothetical protein; Provisional; Region: PRK05713 1280938013529 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 1280938013530 catalytic loop [active] 1280938013531 iron binding site [ion binding]; other site 1280938013532 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1280938013533 FAD binding pocket [chemical binding]; other site 1280938013534 conserved FAD binding motif [chemical binding]; other site 1280938013535 phosphate binding motif [ion binding]; other site 1280938013536 beta-alpha-beta structure motif; other site 1280938013537 NAD binding pocket [chemical binding]; other site 1280938013538 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938013539 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938013540 metal binding site [ion binding]; metal-binding site 1280938013541 active site 1280938013542 I-site; other site 1280938013543 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1280938013544 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1280938013545 manganese transport protein MntH; Reviewed; Region: PRK00701 1280938013546 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1280938013547 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1280938013548 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1280938013549 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1280938013550 conserved cys residue [active] 1280938013551 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1280938013552 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1280938013553 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1280938013554 PLD-like domain; Region: PLDc_2; pfam13091 1280938013555 putative active site [active] 1280938013556 catalytic site [active] 1280938013557 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1280938013558 PLD-like domain; Region: PLDc_2; pfam13091 1280938013559 putative active site [active] 1280938013560 catalytic site [active] 1280938013561 YceI-like domain; Region: YceI; pfam04264 1280938013562 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1280938013563 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1280938013564 amidase; Provisional; Region: PRK07486 1280938013565 Amidase; Region: Amidase; pfam01425 1280938013566 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 1280938013567 metabolite-proton symporter; Region: 2A0106; TIGR00883 1280938013568 putative substrate translocation pore; other site 1280938013569 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1280938013570 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1280938013571 metal binding site [ion binding]; metal-binding site 1280938013572 putative dimer interface [polypeptide binding]; other site 1280938013573 YceI-like domain; Region: YceI; pfam04264 1280938013574 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1280938013575 Beta-lactamase; Region: Beta-lactamase; pfam00144 1280938013576 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1280938013577 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1280938013578 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938013579 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938013580 active site 1280938013581 Putative hemolysin [General function prediction only]; Region: COG3176 1280938013582 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1280938013583 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1280938013584 putative acyl-acceptor binding pocket; other site 1280938013585 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 1280938013586 Ligand Binding Site [chemical binding]; other site 1280938013587 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 1280938013588 Ligand Binding Site [chemical binding]; other site 1280938013589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3124 1280938013590 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 1280938013591 dimerization interface [polypeptide binding]; other site 1280938013592 putative DNA binding site [nucleotide binding]; other site 1280938013593 putative Zn2+ binding site [ion binding]; other site 1280938013594 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1280938013595 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 1280938013596 putative substrate translocation pore; other site 1280938013597 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938013598 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 1280938013599 FMN binding site [chemical binding]; other site 1280938013600 active site 1280938013601 substrate binding site [chemical binding]; other site 1280938013602 catalytic residue [active] 1280938013603 FeoC like transcriptional regulator; Region: FeoC; cl17677 1280938013604 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1280938013605 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1280938013606 G1 box; other site 1280938013607 GTP/Mg2+ binding site [chemical binding]; other site 1280938013608 Switch I region; other site 1280938013609 G2 box; other site 1280938013610 G3 box; other site 1280938013611 Switch II region; other site 1280938013612 G4 box; other site 1280938013613 G5 box; other site 1280938013614 Nucleoside recognition; Region: Gate; pfam07670 1280938013615 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1280938013616 Nucleoside recognition; Region: Gate; pfam07670 1280938013617 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 1280938013618 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1280938013619 oligomer interface [polypeptide binding]; other site 1280938013620 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1280938013621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938013622 NAD(P) binding site [chemical binding]; other site 1280938013623 active site 1280938013624 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1280938013625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938013626 NAD(P) binding site [chemical binding]; other site 1280938013627 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1280938013628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938013629 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 1280938013630 dimerization interface [polypeptide binding]; other site 1280938013631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1280938013632 ACT domain; Region: ACT_3; pfam10000 1280938013633 Lysine efflux permease [General function prediction only]; Region: COG1279 1280938013634 superoxide dismutase; Provisional; Region: PRK10543 1280938013635 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1280938013636 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1280938013637 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1280938013638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938013639 metal binding site [ion binding]; metal-binding site 1280938013640 active site 1280938013641 I-site; other site 1280938013642 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 1280938013643 E3 Ubiquitin ligase; Region: GIDE; pfam12483 1280938013644 LemA family; Region: LemA; pfam04011 1280938013645 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 1280938013646 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1280938013647 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1280938013648 Imelysin; Region: Peptidase_M75; cl09159 1280938013649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 1280938013650 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938013651 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938013652 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938013653 multidrug efflux protein; Reviewed; Region: PRK09579 1280938013654 Protein export membrane protein; Region: SecD_SecF; cl14618 1280938013655 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1280938013656 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 1280938013657 active site 1280938013658 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1280938013659 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 1280938013660 S-adenosylmethionine binding site [chemical binding]; other site 1280938013661 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938013662 HAMP domain; Region: HAMP; pfam00672 1280938013663 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 1280938013664 dimer interface [polypeptide binding]; other site 1280938013665 phosphorylation site [posttranslational modification] 1280938013666 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 1280938013667 ATP binding site [chemical binding]; other site 1280938013668 Mg2+ binding site [ion binding]; other site 1280938013669 G-X-G motif; other site 1280938013670 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938013671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938013672 active site 1280938013673 phosphorylation site [posttranslational modification] 1280938013674 intermolecular recognition site; other site 1280938013675 dimerization interface [polypeptide binding]; other site 1280938013676 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 1280938013677 DNA binding site [nucleotide binding] 1280938013678 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 1280938013679 active site 1280938013680 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 1280938013681 chromosome condensation membrane protein; Provisional; Region: PRK14196 1280938013682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 1280938013683 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1280938013684 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 1280938013685 ring oligomerisation interface [polypeptide binding]; other site 1280938013686 ATP/Mg binding site [chemical binding]; other site 1280938013687 stacking interactions; other site 1280938013688 hinge regions; other site 1280938013689 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 1280938013690 oligomerisation interface [polypeptide binding]; other site 1280938013691 mobile loop; other site 1280938013692 roof hairpin; other site 1280938013693 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1280938013694 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1280938013695 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1280938013696 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1280938013697 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1280938013698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938013699 NAD(P) binding site [chemical binding]; other site 1280938013700 active site 1280938013701 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1280938013702 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1280938013703 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 1280938013704 DNA binding site [nucleotide binding] 1280938013705 active site 1280938013706 AmpG-like permease; Region: 2A0125; TIGR00901 1280938013707 muropeptide transporter; Validated; Region: ampG; cl17669 1280938013708 mechanosensitive channel MscS; Provisional; Region: PRK10334 1280938013709 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938013710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1280938013711 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1280938013712 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938013713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938013714 active site 1280938013715 phosphorylation site [posttranslational modification] 1280938013716 intermolecular recognition site; other site 1280938013717 dimerization interface [polypeptide binding]; other site 1280938013718 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1280938013719 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1280938013720 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 1280938013721 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1280938013722 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 1280938013723 dimerization interface [polypeptide binding]; other site 1280938013724 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1280938013725 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 1280938013726 putative active site [active] 1280938013727 heme pocket [chemical binding]; other site 1280938013728 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 1280938013729 dimer interface [polypeptide binding]; other site 1280938013730 phosphorylation site [posttranslational modification] 1280938013731 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 1280938013732 ATP binding site [chemical binding]; other site 1280938013733 Mg2+ binding site [ion binding]; other site 1280938013734 G-X-G motif; other site 1280938013735 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1280938013736 hypothetical protein; Provisional; Region: PRK08999 1280938013737 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 1280938013738 active site 1280938013739 8-oxo-dGMP binding site [chemical binding]; other site 1280938013740 nudix motif; other site 1280938013741 metal binding site [ion binding]; metal-binding site 1280938013742 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 1280938013743 thiamine phosphate binding site [chemical binding]; other site 1280938013744 active site 1280938013745 pyrophosphate binding site [ion binding]; other site 1280938013746 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 1280938013747 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1280938013748 putative C-terminal domain interface [polypeptide binding]; other site 1280938013749 putative GSH binding site (G-site) [chemical binding]; other site 1280938013750 putative dimer interface [polypeptide binding]; other site 1280938013751 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1280938013752 putative N-terminal domain interface [polypeptide binding]; other site 1280938013753 putative dimer interface [polypeptide binding]; other site 1280938013754 putative substrate binding pocket (H-site) [chemical binding]; other site 1280938013755 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 1280938013756 heterotetramer interface [polypeptide binding]; other site 1280938013757 active site pocket [active] 1280938013758 cleavage site 1280938013759 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1280938013760 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 1280938013761 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1280938013762 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 1280938013763 nucleotide binding region [chemical binding]; other site 1280938013764 ATP-binding site [chemical binding]; other site 1280938013765 SEC-C motif; Region: SEC-C; pfam02810 1280938013766 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1280938013767 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938013768 Protein of unknown function (DUF721); Region: DUF721; cl02324 1280938013769 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1280938013770 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1280938013771 cell division protein FtsZ; Validated; Region: PRK09330 1280938013772 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 1280938013773 nucleotide binding site [chemical binding]; other site 1280938013774 SulA interaction site; other site 1280938013775 cell division protein FtsA; Region: ftsA; TIGR01174 1280938013776 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1280938013777 nucleotide binding site [chemical binding]; other site 1280938013778 Cell division protein FtsA; Region: FtsA; pfam14450 1280938013779 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1280938013780 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1280938013781 Cell division protein FtsQ; Region: FtsQ; pfam03799 1280938013782 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1280938013783 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1280938013784 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938013785 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1280938013786 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1280938013787 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1280938013788 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1280938013789 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1280938013790 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 1280938013791 active site 1280938013792 homodimer interface [polypeptide binding]; other site 1280938013793 cell division protein FtsW; Region: ftsW; TIGR02614 1280938013794 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1280938013795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938013796 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1280938013797 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1280938013798 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 1280938013799 Mg++ binding site [ion binding]; other site 1280938013800 putative catalytic motif [active] 1280938013801 putative substrate binding site [chemical binding]; other site 1280938013802 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1280938013803 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1280938013804 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1280938013805 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1280938013806 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1280938013807 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1280938013808 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1280938013809 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1280938013810 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1280938013811 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1280938013812 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1280938013813 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1280938013814 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1280938013815 MraW methylase family; Region: Methyltransf_5; cl17771 1280938013816 cell division protein MraZ; Reviewed; Region: PRK00326 1280938013817 MraZ protein; Region: MraZ; pfam02381 1280938013818 MraZ protein; Region: MraZ; pfam02381 1280938013819 Predicted methyltransferases [General function prediction only]; Region: COG0313 1280938013820 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1280938013821 putative SAM binding site [chemical binding]; other site 1280938013822 putative homodimer interface [polypeptide binding]; other site 1280938013823 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 1280938013824 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1280938013825 putative ligand binding site [chemical binding]; other site 1280938013826 hypothetical protein; Reviewed; Region: PRK12497 1280938013827 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 1280938013828 dimer interface [polypeptide binding]; other site 1280938013829 active site 1280938013830 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1280938013831 BON domain; Region: BON; pfam04972 1280938013832 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1280938013833 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1280938013834 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 1280938013835 C-terminal domain interface [polypeptide binding]; other site 1280938013836 putative GSH binding site (G-site) [chemical binding]; other site 1280938013837 dimer interface [polypeptide binding]; other site 1280938013838 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1280938013839 dimer interface [polypeptide binding]; other site 1280938013840 N-terminal domain interface [polypeptide binding]; other site 1280938013841 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1280938013842 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1280938013843 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 1280938013844 Qi binding site; other site 1280938013845 intrachain domain interface; other site 1280938013846 interchain domain interface [polypeptide binding]; other site 1280938013847 heme bH binding site [chemical binding]; other site 1280938013848 heme bL binding site [chemical binding]; other site 1280938013849 Qo binding site; other site 1280938013850 interchain domain interface [polypeptide binding]; other site 1280938013851 intrachain domain interface; other site 1280938013852 Qi binding site; other site 1280938013853 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1280938013854 Qo binding site; other site 1280938013855 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1280938013856 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 1280938013857 [2Fe-2S] cluster binding site [ion binding]; other site 1280938013858 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1280938013859 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 1280938013860 23S rRNA interface [nucleotide binding]; other site 1280938013861 L3 interface [polypeptide binding]; other site 1280938013862 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 1280938013863 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938013864 active site 1280938013865 catalytic tetrad [active] 1280938013866 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938013867 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938013868 active site 1280938013869 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1280938013870 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1280938013871 conserved cys residue [active] 1280938013872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938013874 Predicted ATPase [General function prediction only]; Region: COG1485 1280938013875 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1280938013876 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1280938013877 active site 1280938013878 HIGH motif; other site 1280938013879 dimer interface [polypeptide binding]; other site 1280938013880 KMSKS motif; other site 1280938013881 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1280938013882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1280938013883 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1280938013884 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1280938013885 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1280938013886 CysD dimerization site [polypeptide binding]; other site 1280938013887 G1 box; other site 1280938013888 putative GEF interaction site [polypeptide binding]; other site 1280938013889 GTP/Mg2+ binding site [chemical binding]; other site 1280938013890 Switch I region; other site 1280938013891 G2 box; other site 1280938013892 G3 box; other site 1280938013893 Switch II region; other site 1280938013894 G4 box; other site 1280938013895 G5 box; other site 1280938013896 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 1280938013897 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 1280938013898 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 1280938013899 ligand-binding site [chemical binding]; other site 1280938013900 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1280938013901 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 1280938013902 Active Sites [active] 1280938013903 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 1280938013904 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 1280938013905 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1280938013906 catalytic residue [active] 1280938013907 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1280938013908 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1280938013909 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1280938013910 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 1280938013911 protein binding site [polypeptide binding]; other site 1280938013912 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1280938013913 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 1280938013914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938013915 homodimer interface [polypeptide binding]; other site 1280938013916 catalytic residue [active] 1280938013917 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1280938013918 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 1280938013919 NAD binding site [chemical binding]; other site 1280938013920 dimerization interface [polypeptide binding]; other site 1280938013921 product binding site; other site 1280938013922 substrate binding site [chemical binding]; other site 1280938013923 zinc binding site [ion binding]; other site 1280938013924 catalytic residues [active] 1280938013925 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1280938013926 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1280938013927 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1280938013928 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 1280938013929 hinge; other site 1280938013930 active site 1280938013931 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1280938013932 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 1280938013933 anti sigma factor interaction site; other site 1280938013934 regulatory phosphorylation site [posttranslational modification]; other site 1280938013935 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1280938013936 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1280938013937 mce related protein; Region: MCE; pfam02470 1280938013938 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1280938013939 conserved hypothetical integral membrane protein; Region: TIGR00056 1280938013940 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1280938013941 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1280938013942 Walker A/P-loop; other site 1280938013943 ATP binding site [chemical binding]; other site 1280938013944 Q-loop/lid; other site 1280938013945 ABC transporter signature motif; other site 1280938013946 Walker B; other site 1280938013947 D-loop; other site 1280938013948 H-loop/switch region; other site 1280938013949 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1280938013950 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 1280938013951 putative active site [active] 1280938013952 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 1280938013953 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 1280938013954 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1280938013955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1280938013956 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1280938013957 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1280938013958 OstA-like protein; Region: OstA; pfam03968 1280938013959 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1280938013960 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1280938013961 Walker A/P-loop; other site 1280938013962 ATP binding site [chemical binding]; other site 1280938013963 Q-loop/lid; other site 1280938013964 ABC transporter signature motif; other site 1280938013965 Walker B; other site 1280938013966 D-loop; other site 1280938013967 H-loop/switch region; other site 1280938013968 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1280938013969 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1280938013970 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1280938013971 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1280938013972 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 1280938013973 30S subunit binding site; other site 1280938013974 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 1280938013975 active site 1280938013976 phosphorylation site [posttranslational modification] 1280938013977 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1280938013978 AAA domain; Region: AAA_18; pfam13238 1280938013979 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 1280938013980 dimerization domain swap beta strand [polypeptide binding]; other site 1280938013981 regulatory protein interface [polypeptide binding]; other site 1280938013982 active site 1280938013983 regulatory phosphorylation site [posttranslational modification]; other site 1280938013984 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1280938013985 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1280938013986 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1280938013987 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1280938013988 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 1280938013989 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1280938013990 Class II fumarases; Region: Fumarase_classII; cd01362 1280938013991 active site 1280938013992 tetramer interface [polypeptide binding]; other site 1280938013993 peptidase PmbA; Provisional; Region: PRK11040 1280938013994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 1280938013995 protease TldD; Provisional; Region: tldD; PRK10735 1280938013996 nitrilase; Region: PLN02798 1280938013997 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1280938013998 putative active site [active] 1280938013999 catalytic triad [active] 1280938014000 dimer interface [polypeptide binding]; other site 1280938014001 Predicted membrane protein [Function unknown]; Region: COG3164 1280938014002 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1280938014003 ribonuclease G; Provisional; Region: PRK11712 1280938014004 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 1280938014005 homodimer interface [polypeptide binding]; other site 1280938014006 oligonucleotide binding site [chemical binding]; other site 1280938014007 Maf-like protein; Region: Maf; pfam02545 1280938014008 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 1280938014009 active site 1280938014010 dimer interface [polypeptide binding]; other site 1280938014011 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1280938014012 rod shape-determining protein MreC; Provisional; Region: PRK13922 1280938014013 rod shape-determining protein MreC; Region: MreC; pfam04085 1280938014014 rod shape-determining protein MreB; Provisional; Region: PRK13927 1280938014015 MreB and similar proteins; Region: MreB_like; cd10225 1280938014016 nucleotide binding site [chemical binding]; other site 1280938014017 Mg binding site [ion binding]; other site 1280938014018 putative protofilament interaction site [polypeptide binding]; other site 1280938014019 RodZ interaction site [polypeptide binding]; other site 1280938014020 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1280938014021 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1280938014022 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1280938014023 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1280938014024 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1280938014025 GatB domain; Region: GatB_Yqey; smart00845 1280938014026 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1280938014027 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1280938014028 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1280938014029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1280938014030 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cl17565 1280938014031 putative metal binding site [ion binding]; other site 1280938014032 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1280938014033 Predicted secreted protein [Function unknown]; Region: COG5445 1280938014034 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1280938014035 Predicted secreted protein [Function unknown]; Region: COG5445 1280938014036 Stage II sporulation protein; Region: SpoIID; pfam08486 1280938014037 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1280938014038 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1280938014039 MG2 domain; Region: A2M_N; pfam01835 1280938014040 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1280938014041 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1280938014042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 1280938014043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 1280938014044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1280938014045 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1280938014046 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1280938014047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938014048 active site 1280938014049 phosphorylation site [posttranslational modification] 1280938014050 intermolecular recognition site; other site 1280938014051 dimerization interface [polypeptide binding]; other site 1280938014052 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938014053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938014054 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 1280938014055 phosphorylation site [posttranslational modification] 1280938014056 dimer interface [polypeptide binding]; other site 1280938014057 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1280938014058 ATP binding site [chemical binding]; other site 1280938014059 G-X-G motif; other site 1280938014060 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 1280938014061 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1280938014062 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1280938014063 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1280938014064 peptide binding site [polypeptide binding]; other site 1280938014065 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1280938014066 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1280938014067 peptide binding site [polypeptide binding]; other site 1280938014068 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1280938014069 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1280938014070 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 1280938014071 active site 1280938014072 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 1280938014073 non-specific DNA binding site [nucleotide binding]; other site 1280938014074 salt bridge; other site 1280938014075 sequence-specific DNA binding site [nucleotide binding]; other site 1280938014076 Cupin domain; Region: Cupin_2; pfam07883 1280938014077 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1280938014078 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1280938014079 peptide binding site [polypeptide binding]; other site 1280938014080 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938014081 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1280938014082 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1280938014083 peptide binding site [polypeptide binding]; other site 1280938014084 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1280938014085 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 1280938014086 dimer interface [polypeptide binding]; other site 1280938014087 conserved gate region; other site 1280938014088 putative PBP binding loops; other site 1280938014089 ABC-ATPase subunit interface; other site 1280938014090 dipeptide transporter; Provisional; Region: PRK10913 1280938014091 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1280938014092 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 1280938014093 putative PBP binding loops; other site 1280938014094 dimer interface [polypeptide binding]; other site 1280938014095 ABC-ATPase subunit interface; other site 1280938014096 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1280938014097 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1280938014098 Walker A/P-loop; other site 1280938014099 ATP binding site [chemical binding]; other site 1280938014100 Q-loop/lid; other site 1280938014101 ABC transporter signature motif; other site 1280938014102 Walker B; other site 1280938014103 D-loop; other site 1280938014104 H-loop/switch region; other site 1280938014105 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1280938014106 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1280938014107 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1280938014108 Walker A/P-loop; other site 1280938014109 ATP binding site [chemical binding]; other site 1280938014110 Q-loop/lid; other site 1280938014111 ABC transporter signature motif; other site 1280938014112 Walker B; other site 1280938014113 D-loop; other site 1280938014114 H-loop/switch region; other site 1280938014115 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1280938014116 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938014117 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938014118 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 1280938014119 putative DNA binding site [nucleotide binding]; other site 1280938014120 putative Zn2+ binding site [ion binding]; other site 1280938014121 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938014122 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1280938014123 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1280938014124 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1280938014125 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1280938014126 putative active site [active] 1280938014127 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1280938014128 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1280938014129 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1280938014130 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1280938014131 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1280938014132 Flavodoxin; Region: Flavodoxin_1; pfam00258 1280938014133 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 1280938014134 FAD binding pocket [chemical binding]; other site 1280938014135 FAD binding motif [chemical binding]; other site 1280938014136 catalytic residues [active] 1280938014137 NAD binding pocket [chemical binding]; other site 1280938014138 phosphate binding motif [ion binding]; other site 1280938014139 beta-alpha-beta structure motif; other site 1280938014140 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1280938014141 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 1280938014142 N-terminal plug; other site 1280938014143 ligand-binding site [chemical binding]; other site 1280938014144 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1280938014145 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938014146 Sel1-like repeats; Region: SEL1; smart00671 1280938014147 Sel1-like repeats; Region: SEL1; smart00671 1280938014148 hypothetical protein; Provisional; Region: PRK10649 1280938014149 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1280938014150 Sulfatase; Region: Sulfatase; pfam00884 1280938014151 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938014152 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 1280938014153 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1280938014154 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1280938014155 dimer interface [polypeptide binding]; other site 1280938014156 active site 1280938014157 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1280938014158 catalytic residues [active] 1280938014159 substrate binding site [chemical binding]; other site 1280938014160 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1280938014161 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 1280938014162 dimerization interface [polypeptide binding]; other site 1280938014163 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938014164 dimer interface [polypeptide binding]; other site 1280938014165 putative CheW interface [polypeptide binding]; other site 1280938014166 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1280938014167 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1280938014168 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 1280938014169 amidase catalytic site [active] 1280938014170 Zn binding residues [ion binding]; other site 1280938014171 substrate binding site [chemical binding]; other site 1280938014172 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1280938014173 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1280938014174 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 1280938014175 dimerization interface [polypeptide binding]; other site 1280938014176 active site 1280938014177 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1280938014178 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1280938014179 Pilin (bacterial filament); Region: Pilin; pfam00114 1280938014180 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1280938014181 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1280938014182 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 1280938014183 Walker A motif; other site 1280938014184 ATP binding site [chemical binding]; other site 1280938014185 Walker B motif; other site 1280938014186 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1280938014187 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938014188 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938014189 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 1280938014190 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1280938014191 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1280938014192 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1280938014193 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 1280938014194 CoA-binding site [chemical binding]; other site 1280938014195 ATP-binding [chemical binding]; other site 1280938014196 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1280938014197 Predicted membrane protein [Function unknown]; Region: COG3235 1280938014198 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1280938014199 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1280938014200 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938014201 Coenzyme A binding pocket [chemical binding]; other site 1280938014202 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1280938014203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1280938014204 MOSC domain; Region: MOSC; pfam03473 1280938014205 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1280938014206 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1280938014207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938014208 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 1280938014209 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1280938014210 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1280938014211 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1280938014212 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1280938014213 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1280938014214 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 1280938014215 P-loop; other site 1280938014216 Magnesium ion binding site [ion binding]; other site 1280938014217 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 1280938014218 Magnesium ion binding site [ion binding]; other site 1280938014219 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 1280938014220 HNH endonuclease; Region: HNH_3; pfam13392 1280938014221 replicative DNA helicase; Region: DnaB; TIGR00665 1280938014222 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1280938014223 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 1280938014224 Walker A motif; other site 1280938014225 ATP binding site [chemical binding]; other site 1280938014226 Walker B motif; other site 1280938014227 DNA binding loops [nucleotide binding] 1280938014228 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1280938014229 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1280938014230 Arc-like DNA binding domain; Region: Arc; pfam03869 1280938014231 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1280938014232 ParB-like nuclease domain; Region: ParB; smart00470 1280938014233 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1280938014234 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 1280938014235 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1280938014236 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1280938014237 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 1280938014238 dimer interface [polypeptide binding]; other site 1280938014239 ssDNA binding site [nucleotide binding]; other site 1280938014240 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1280938014241 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 1280938014242 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 1280938014243 active site 1280938014244 interdomain interaction site; other site 1280938014245 putative metal-binding site [ion binding]; other site 1280938014246 nucleotide binding site [chemical binding]; other site 1280938014247 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 1280938014248 domain I; other site 1280938014249 DNA binding groove [nucleotide binding] 1280938014250 phosphate binding site [ion binding]; other site 1280938014251 domain II; other site 1280938014252 domain III; other site 1280938014253 nucleotide binding site [chemical binding]; other site 1280938014254 catalytic site [active] 1280938014255 domain IV; other site 1280938014256 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 1280938014257 ATP binding site [chemical binding]; other site 1280938014258 putative Mg++ binding site [ion binding]; other site 1280938014259 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1280938014260 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 1280938014261 nucleotide binding region [chemical binding]; other site 1280938014262 ATP-binding site [chemical binding]; other site 1280938014263 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1280938014264 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1280938014265 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1280938014266 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1280938014267 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938014268 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 1280938014269 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 1280938014270 Type II/IV secretion system protein; Region: T2SE; pfam00437 1280938014271 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 1280938014272 Walker A motif; other site 1280938014273 ATP binding site [chemical binding]; other site 1280938014274 Walker B motif; other site 1280938014275 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938014276 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1280938014277 PilS N terminal; Region: PilS; pfam08805 1280938014278 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 1280938014279 Walker A motif; other site 1280938014280 ATP binding site [chemical binding]; other site 1280938014281 Walker B motif; other site 1280938014282 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1280938014283 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 1280938014284 PilM; Region: PilM; pfam07419 1280938014285 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1280938014286 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 1280938014287 potential frameshift: common BLAST hit: gi|152987462|ref|YP_001349841.1| O-methyl transferase family protein 1280938014288 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1280938014289 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1280938014290 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 1280938014291 putative Mg++ binding site [ion binding]; other site 1280938014292 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 1280938014293 nucleotide binding region [chemical binding]; other site 1280938014294 ATP-binding site [chemical binding]; other site 1280938014295 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1280938014296 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1280938014297 active site 1280938014298 DNA binding site [nucleotide binding] 1280938014299 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1280938014300 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1280938014301 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 1280938014302 Catalytic site [active] 1280938014303 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1280938014304 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1280938014305 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1280938014306 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1280938014307 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1280938014308 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1280938014309 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1280938014310 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1280938014311 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1280938014312 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1280938014313 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1280938014314 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1280938014315 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1280938014316 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1280938014317 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1280938014318 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1280938014319 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1280938014320 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1280938014321 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1280938014322 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938014323 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1280938014324 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1280938014325 catalytic residues [active] 1280938014326 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1280938014327 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cl12104 1280938014328 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1280938014329 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 1280938014330 S-adenosylmethionine binding site [chemical binding]; other site 1280938014331 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 1280938014332 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1280938014333 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1280938014334 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1280938014335 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1280938014336 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1280938014337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1280938014338 Transposase; Region: HTH_Tnp_1; pfam01527 1280938014339 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1280938014340 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1280938014341 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1280938014342 acyl-activating enzyme (AAE) consensus motif; other site 1280938014343 putative AMP binding site [chemical binding]; other site 1280938014344 putative active site [active] 1280938014345 putative CoA binding site [chemical binding]; other site 1280938014346 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 1280938014347 heme binding pocket [chemical binding]; other site 1280938014348 heme ligand [chemical binding]; other site 1280938014349 short chain dehydrogenase; Provisional; Region: PRK09072 1280938014350 classical (c) SDRs; Region: SDR_c; cd05233 1280938014351 NAD(P) binding site [chemical binding]; other site 1280938014352 active site 1280938014353 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 1280938014354 TPR motif; other site 1280938014355 binding surface 1280938014356 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938014357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938014358 active site 1280938014359 phosphorylation site [posttranslational modification] 1280938014360 intermolecular recognition site; other site 1280938014361 dimerization interface [polypeptide binding]; other site 1280938014362 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 1280938014363 DNA binding site [nucleotide binding] 1280938014364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938014365 HAMP domain; Region: HAMP; pfam00672 1280938014366 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 1280938014367 dimer interface [polypeptide binding]; other site 1280938014368 phosphorylation site [posttranslational modification] 1280938014369 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 1280938014370 ATP binding site [chemical binding]; other site 1280938014371 Mg2+ binding site [ion binding]; other site 1280938014372 G-X-G motif; other site 1280938014373 Dihaem cytochrome c; Region: DHC; pfam09626 1280938014374 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 1280938014375 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1280938014376 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1280938014377 FAD binding pocket [chemical binding]; other site 1280938014378 FAD binding motif [chemical binding]; other site 1280938014379 phosphate binding motif [ion binding]; other site 1280938014380 beta-alpha-beta structure motif; other site 1280938014381 NAD(p) ribose binding residues [chemical binding]; other site 1280938014382 NAD binding pocket [chemical binding]; other site 1280938014383 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1280938014384 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 1280938014385 catalytic loop [active] 1280938014386 iron binding site [ion binding]; other site 1280938014387 Transposase; Region: HTH_Tnp_1; pfam01527 1280938014388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1280938014389 HTH-like domain; Region: HTH_21; pfam13276 1280938014390 Integrase core domain; Region: rve; pfam00665 1280938014391 Integrase core domain; Region: rve_3; pfam13683 1280938014392 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1280938014393 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1280938014394 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1280938014395 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1280938014396 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1280938014397 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 1280938014398 S-adenosylmethionine binding site [chemical binding]; other site 1280938014399 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1280938014400 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1280938014401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938014402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938014403 NAD(P) binding site [chemical binding]; other site 1280938014404 active site 1280938014405 SnoaL-like domain; Region: SnoaL_2; pfam12680 1280938014406 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 1280938014407 PAS domain; Region: PAS_9; pfam13426 1280938014408 putative active site [active] 1280938014409 heme pocket [chemical binding]; other site 1280938014410 B12 binding domain; Region: B12-binding_2; cl03653 1280938014411 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1280938014412 Putative helicase; Region: TraI_2; pfam07514 1280938014413 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1280938014414 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1280938014415 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1280938014416 active site 1280938014417 catalytic residues [active] 1280938014418 DNA binding site [nucleotide binding] 1280938014419 Int/Topo IB signature motif; other site 1280938014420 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1280938014421 Clp amino terminal domain; Region: Clp_N; pfam02861 1280938014422 Clp amino terminal domain; Region: Clp_N; pfam02861 1280938014423 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 1280938014424 Walker A motif; other site 1280938014425 ATP binding site [chemical binding]; other site 1280938014426 Walker B motif; other site 1280938014427 arginine finger; other site 1280938014428 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 1280938014429 Walker A motif; other site 1280938014430 ATP binding site [chemical binding]; other site 1280938014431 Walker B motif; other site 1280938014432 arginine finger; other site 1280938014433 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1280938014434 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1280938014435 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1280938014436 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1280938014437 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 1280938014438 RNA binding surface [nucleotide binding]; other site 1280938014439 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1280938014440 active site 1280938014441 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1280938014442 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1280938014443 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 1280938014444 dimer interface [polypeptide binding]; other site 1280938014445 phosphorylation site [posttranslational modification] 1280938014446 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 1280938014447 ATP binding site [chemical binding]; other site 1280938014448 Mg2+ binding site [ion binding]; other site 1280938014449 G-X-G motif; other site 1280938014450 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938014451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938014452 active site 1280938014453 phosphorylation site [posttranslational modification] 1280938014454 intermolecular recognition site; other site 1280938014455 dimerization interface [polypeptide binding]; other site 1280938014456 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 1280938014457 Walker A motif; other site 1280938014458 ATP binding site [chemical binding]; other site 1280938014459 Walker B motif; other site 1280938014460 arginine finger; other site 1280938014461 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938014462 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938014463 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1280938014464 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1280938014465 Type II transport protein GspH; Region: GspH; pfam12019 1280938014466 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1280938014467 Type II transport protein GspH; Region: GspH; pfam12019 1280938014468 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1280938014469 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 1280938014470 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1280938014471 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1280938014472 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1280938014473 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1280938014474 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1280938014475 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1280938014476 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1280938014477 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1280938014478 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1280938014479 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1280938014480 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1280938014481 lipoprotein signal peptidase; Provisional; Region: PRK14787 1280938014482 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1280938014483 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1280938014484 active site 1280938014485 HIGH motif; other site 1280938014486 nucleotide binding site [chemical binding]; other site 1280938014487 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1280938014488 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1280938014489 active site 1280938014490 KMSKS motif; other site 1280938014491 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1280938014492 tRNA binding surface [nucleotide binding]; other site 1280938014493 anticodon binding site; other site 1280938014494 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1280938014495 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1280938014496 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1280938014497 active site 1280938014498 Riboflavin kinase; Region: Flavokinase; pfam01687 1280938014499 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1280938014500 MviN-like protein; Region: MVIN; pfam03023 1280938014501 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1280938014502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1280938014503 CreA protein; Region: CreA; pfam05981 1280938014504 gamma-glutamyl kinase; Provisional; Region: PRK05429 1280938014505 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 1280938014506 nucleotide binding site [chemical binding]; other site 1280938014507 homotetrameric interface [polypeptide binding]; other site 1280938014508 putative phosphate binding site [ion binding]; other site 1280938014509 putative allosteric binding site; other site 1280938014510 PUA domain; Region: PUA; pfam01472 1280938014511 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1280938014512 GTP1/OBG; Region: GTP1_OBG; pfam01018 1280938014513 Obg GTPase; Region: Obg; cd01898 1280938014514 G1 box; other site 1280938014515 GTP/Mg2+ binding site [chemical binding]; other site 1280938014516 Switch I region; other site 1280938014517 G2 box; other site 1280938014518 G3 box; other site 1280938014519 Switch II region; other site 1280938014520 G4 box; other site 1280938014521 G5 box; other site 1280938014522 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1280938014523 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1280938014524 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1280938014525 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1280938014526 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1280938014527 substrate binding pocket [chemical binding]; other site 1280938014528 chain length determination region; other site 1280938014529 substrate-Mg2+ binding site; other site 1280938014530 catalytic residues [active] 1280938014531 aspartate-rich region 1; other site 1280938014532 active site lid residues [active] 1280938014533 aspartate-rich region 2; other site 1280938014534 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938014535 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938014536 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938014537 Cytochrome c [Energy production and conversion]; Region: COG3258 1280938014538 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938014539 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1280938014540 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1280938014541 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1280938014542 hypothetical protein; Provisional; Region: PRK05208 1280938014543 methane monooxygenase/ammonia monooxygenase, subunit A; Region: CH4_NH3mon_ox_A; TIGR03080 1280938014544 AAA domain; Region: AAA_32; pfam13654 1280938014545 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1280938014546 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1280938014547 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1280938014548 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1280938014549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 1280938014550 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 1280938014551 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 1280938014552 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 1280938014553 Walker A motif; other site 1280938014554 ATP binding site [chemical binding]; other site 1280938014555 Walker B motif; other site 1280938014556 arginine finger; other site 1280938014557 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1280938014558 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 1280938014559 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1280938014560 hypothetical protein; Reviewed; Region: PRK09588 1280938014561 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1280938014562 active site 1280938014563 NTP binding site [chemical binding]; other site 1280938014564 metal binding triad [ion binding]; metal-binding site 1280938014565 antibiotic binding site [chemical binding]; other site 1280938014566 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 1280938014567 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 1280938014568 putative active site [active] 1280938014569 adenylation catalytic residue [active] 1280938014570 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1280938014571 glutamate dehydrogenase; Provisional; Region: PRK09414 1280938014572 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1280938014573 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1280938014574 NAD(P) binding site [chemical binding]; other site 1280938014575 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1280938014576 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938014577 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938014578 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938014579 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1280938014580 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1280938014581 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1280938014582 FtsX-like permease family; Region: FtsX; pfam02687 1280938014583 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1280938014584 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1280938014585 Walker A/P-loop; other site 1280938014586 ATP binding site [chemical binding]; other site 1280938014587 Q-loop/lid; other site 1280938014588 ABC transporter signature motif; other site 1280938014589 Walker B; other site 1280938014590 D-loop; other site 1280938014591 H-loop/switch region; other site 1280938014592 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1280938014593 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938014594 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938014595 ABC transporter; Region: ABC_tran_2; pfam12848 1280938014596 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938014597 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938014598 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938014599 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1280938014600 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1280938014601 Protein export membrane protein; Region: SecD_SecF; cl14618 1280938014602 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1280938014603 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938014604 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938014605 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938014606 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1280938014607 PAS domain; Region: PAS_9; pfam13426 1280938014608 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 1280938014609 PAS fold; Region: PAS_3; pfam08447 1280938014610 putative active site [active] 1280938014611 heme pocket [chemical binding]; other site 1280938014612 PAS domain; Region: PAS_9; pfam13426 1280938014613 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1280938014614 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 1280938014615 PAS domain; Region: PAS_9; pfam13426 1280938014616 putative active site [active] 1280938014617 heme pocket [chemical binding]; other site 1280938014618 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938014619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938014620 metal binding site [ion binding]; metal-binding site 1280938014621 active site 1280938014622 I-site; other site 1280938014623 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 1280938014624 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1280938014625 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 1280938014626 dimer interface [polypeptide binding]; other site 1280938014627 active site 1280938014628 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1280938014629 folate binding site [chemical binding]; other site 1280938014630 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1280938014631 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1280938014632 P-loop, Walker A motif; other site 1280938014633 Base recognition motif; other site 1280938014634 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1280938014635 Uncharacterized small protein [Function unknown]; Region: COG2879 1280938014636 carbon starvation protein A; Provisional; Region: PRK15015 1280938014637 Carbon starvation protein CstA; Region: CstA; pfam02554 1280938014638 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1280938014639 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1280938014640 PilZ domain; Region: PilZ; pfam07238 1280938014641 DNA repair protein RadA; Provisional; Region: PRK11823 1280938014642 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 1280938014643 Walker A motif/ATP binding site; other site 1280938014644 ATP binding site [chemical binding]; other site 1280938014645 Walker B motif; other site 1280938014646 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1280938014647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1280938014648 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1280938014649 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1280938014650 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1280938014651 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1280938014652 tetramer interface [polypeptide binding]; other site 1280938014653 heme binding pocket [chemical binding]; other site 1280938014654 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1280938014655 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1280938014656 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 1280938014657 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1280938014658 FAD binding pocket [chemical binding]; other site 1280938014659 FAD binding motif [chemical binding]; other site 1280938014660 phosphate binding motif [ion binding]; other site 1280938014661 beta-alpha-beta structure motif; other site 1280938014662 NAD binding pocket [chemical binding]; other site 1280938014663 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1280938014664 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1280938014665 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1280938014666 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 1280938014667 S-adenosylmethionine binding site [chemical binding]; other site 1280938014668 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1280938014669 Ligand binding site; other site 1280938014670 metal-binding site 1280938014671 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1280938014672 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1280938014673 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1280938014674 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938014675 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938014676 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938014677 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1280938014678 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1280938014679 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1280938014680 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938014681 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1280938014682 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1280938014683 H+ Antiporter protein; Region: 2A0121; TIGR00900 1280938014684 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1280938014685 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1280938014686 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1280938014687 glycerate dehydrogenase; Provisional; Region: PRK06487 1280938014688 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1280938014689 putative ligand binding site [chemical binding]; other site 1280938014690 putative NAD binding site [chemical binding]; other site 1280938014691 catalytic site [active] 1280938014692 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1280938014693 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1280938014694 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 1280938014695 S-adenosylmethionine binding site [chemical binding]; other site 1280938014696 lysine transporter; Provisional; Region: PRK10836 1280938014697 Predicted membrane protein [Function unknown]; Region: COG2119 1280938014698 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1280938014699 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1280938014700 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1280938014701 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1280938014702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938014703 NAD(P) binding site [chemical binding]; other site 1280938014704 active site 1280938014705 Peptidase family M48; Region: Peptidase_M48; pfam01435 1280938014706 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 1280938014707 dimerization interface [polypeptide binding]; other site 1280938014708 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938014709 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938014710 dimer interface [polypeptide binding]; other site 1280938014711 putative CheW interface [polypeptide binding]; other site 1280938014712 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1280938014713 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1280938014714 MgtC family; Region: MgtC; pfam02308 1280938014715 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1280938014716 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1280938014717 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1280938014718 putative acyl-acceptor binding pocket; other site 1280938014719 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 1280938014720 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1280938014721 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 1280938014722 dimer interface [polypeptide binding]; other site 1280938014723 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938014724 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1280938014725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938014726 active site 1280938014727 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938014728 active site 1280938014729 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1280938014730 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1280938014731 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1280938014732 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1280938014733 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1280938014734 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1280938014735 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1280938014736 PapC N-terminal domain; Region: PapC_N; pfam13954 1280938014737 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1280938014738 PapC C-terminal domain; Region: PapC_C; pfam13953 1280938014739 Spore Coat Protein U domain; Region: SCPU; pfam05229 1280938014740 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1280938014741 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 1280938014742 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938014743 putative substrate translocation pore; other site 1280938014744 ferrochelatase; Reviewed; Region: hemH; PRK00035 1280938014745 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 1280938014746 C-terminal domain interface [polypeptide binding]; other site 1280938014747 active site 1280938014748 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 1280938014749 active site 1280938014750 N-terminal domain interface [polypeptide binding]; other site 1280938014751 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1280938014752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938014753 NAD(P) binding site [chemical binding]; other site 1280938014754 active site 1280938014755 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1280938014756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938014757 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1280938014758 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1280938014759 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1280938014760 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1280938014761 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1280938014762 DNA binding residues [nucleotide binding] 1280938014763 B12 binding domain; Region: B12-binding_2; pfam02607 1280938014764 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1280938014765 DNA photolyase; Region: DNA_photolyase; pfam00875 1280938014766 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1280938014767 glutamate racemase; Provisional; Region: PRK00865 1280938014768 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1280938014769 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 1280938014770 ATP binding site [chemical binding]; other site 1280938014771 substrate interface [chemical binding]; other site 1280938014772 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1280938014773 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 1280938014774 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1280938014775 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1280938014776 RF-1 domain; Region: RF-1; pfam00472 1280938014777 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1280938014778 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1280938014779 tRNA; other site 1280938014780 putative tRNA binding site [nucleotide binding]; other site 1280938014781 putative NADP binding site [chemical binding]; other site 1280938014782 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1280938014783 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 1280938014784 TPR motif; other site 1280938014785 binding surface 1280938014786 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 1280938014787 binding surface 1280938014788 TPR motif; other site 1280938014789 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1280938014790 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 1280938014791 binding surface 1280938014792 TPR motif; other site 1280938014793 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1280938014794 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 1280938014795 binding surface 1280938014796 TPR motif; other site 1280938014797 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1280938014798 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1280938014799 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1280938014800 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1280938014801 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1280938014802 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1280938014803 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938014804 active site 1280938014805 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1280938014806 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1280938014807 5S rRNA interface [nucleotide binding]; other site 1280938014808 CTC domain interface [polypeptide binding]; other site 1280938014809 L16 interface [polypeptide binding]; other site 1280938014810 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1280938014811 metal binding site [ion binding]; metal-binding site 1280938014812 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 1280938014813 putative active site [active] 1280938014814 catalytic residue [active] 1280938014815 GTP-binding protein YchF; Reviewed; Region: PRK09601 1280938014816 YchF GTPase; Region: YchF; cd01900 1280938014817 G1 box; other site 1280938014818 GTP/Mg2+ binding site [chemical binding]; other site 1280938014819 Switch I region; other site 1280938014820 G2 box; other site 1280938014821 Switch II region; other site 1280938014822 G3 box; other site 1280938014823 G4 box; other site 1280938014824 G5 box; other site 1280938014825 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 1280938014826 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1280938014827 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 1280938014828 non-specific DNA binding site [nucleotide binding]; other site 1280938014829 salt bridge; other site 1280938014830 sequence-specific DNA binding site [nucleotide binding]; other site 1280938014831 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1280938014832 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1280938014833 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 1280938014834 N-terminal plug; other site 1280938014835 ligand-binding site [chemical binding]; other site 1280938014836 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1280938014837 active site clefts [active] 1280938014838 zinc binding site [ion binding]; other site 1280938014839 dimer interface [polypeptide binding]; other site 1280938014840 Peptidase family C69; Region: Peptidase_C69; cl17793 1280938014841 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1280938014842 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938014843 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1280938014844 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1280938014845 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1280938014846 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938014847 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1280938014848 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 1280938014849 dimer interface [polypeptide binding]; other site 1280938014850 conserved gate region; other site 1280938014851 putative PBP binding loops; other site 1280938014852 ABC-ATPase subunit interface; other site 1280938014853 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 1280938014854 dimer interface [polypeptide binding]; other site 1280938014855 conserved gate region; other site 1280938014856 putative PBP binding loops; other site 1280938014857 ABC-ATPase subunit interface; other site 1280938014858 mce related protein; Region: MCE; pfam02470 1280938014859 mce related protein; Region: MCE; pfam02470 1280938014860 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1280938014861 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1280938014862 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 1280938014863 Moco binding site; other site 1280938014864 metal coordination site [ion binding]; other site 1280938014865 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1280938014866 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1280938014867 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1280938014868 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1280938014869 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1280938014870 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1280938014871 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1280938014872 putative valine binding site [chemical binding]; other site 1280938014873 dimer interface [polypeptide binding]; other site 1280938014874 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1280938014875 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1280938014876 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1280938014877 PYR/PP interface [polypeptide binding]; other site 1280938014878 dimer interface [polypeptide binding]; other site 1280938014879 TPP binding site [chemical binding]; other site 1280938014880 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938014881 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 1280938014882 TPP-binding site [chemical binding]; other site 1280938014883 dimer interface [polypeptide binding]; other site 1280938014884 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1280938014885 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1280938014886 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 1280938014887 TPR motif; other site 1280938014888 binding surface 1280938014889 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1280938014890 Transglycosylase; Region: Transgly; pfam00912 1280938014891 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1280938014892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1280938014893 Predicted kinase [General function prediction only]; Region: COG0645 1280938014894 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 1280938014895 ATP-binding site [chemical binding]; other site 1280938014896 Gluconate-6-phosphate binding site [chemical binding]; other site 1280938014897 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1280938014898 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1280938014899 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1280938014900 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 1280938014901 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1280938014902 ligand binding site [chemical binding]; other site 1280938014903 flexible hinge region; other site 1280938014904 Uncharacterized iron-regulated protein [Function unknown]; Region: PhuW; COG3016 1280938014905 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1280938014906 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1280938014907 Walker A/P-loop; other site 1280938014908 ATP binding site [chemical binding]; other site 1280938014909 Q-loop/lid; other site 1280938014910 ABC transporter signature motif; other site 1280938014911 Walker B; other site 1280938014912 D-loop; other site 1280938014913 H-loop/switch region; other site 1280938014914 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1280938014915 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 1280938014916 ABC-ATPase subunit interface; other site 1280938014917 dimer interface [polypeptide binding]; other site 1280938014918 putative PBP binding regions; other site 1280938014919 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1280938014920 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1280938014921 putative hemin binding site; other site 1280938014922 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1280938014923 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1280938014924 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1280938014925 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1280938014926 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 1280938014927 N-terminal plug; other site 1280938014928 ligand-binding site [chemical binding]; other site 1280938014929 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 1280938014930 iron-sulfur cluster [ion binding]; other site 1280938014931 [2Fe-2S] cluster binding site [ion binding]; other site 1280938014932 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1280938014933 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1280938014934 aminotransferase; Validated; Region: PRK08175 1280938014935 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 1280938014936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938014937 homodimer interface [polypeptide binding]; other site 1280938014938 catalytic residue [active] 1280938014939 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1280938014940 Predicted metalloprotease [General function prediction only]; Region: COG2321 1280938014941 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1280938014942 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 1280938014943 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1280938014944 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1280938014945 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1280938014946 hypothetical protein; Provisional; Region: PRK08960 1280938014947 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 1280938014948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938014949 homodimer interface [polypeptide binding]; other site 1280938014950 catalytic residue [active] 1280938014951 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1280938014952 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1280938014953 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1280938014954 active site 1280938014955 HIGH motif; other site 1280938014956 nucleotide binding site [chemical binding]; other site 1280938014957 KMSKS motif; other site 1280938014958 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1280938014959 Na binding site [ion binding]; other site 1280938014960 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1280938014961 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 1280938014962 putative active site [active] 1280938014963 heme pocket [chemical binding]; other site 1280938014964 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 1280938014965 dimer interface [polypeptide binding]; other site 1280938014966 phosphorylation site [posttranslational modification] 1280938014967 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 1280938014968 ATP binding site [chemical binding]; other site 1280938014969 Mg2+ binding site [ion binding]; other site 1280938014970 G-X-G motif; other site 1280938014971 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938014972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938014973 active site 1280938014974 phosphorylation site [posttranslational modification] 1280938014975 intermolecular recognition site; other site 1280938014976 dimerization interface [polypeptide binding]; other site 1280938014977 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 1280938014978 Walker A motif; other site 1280938014979 ATP binding site [chemical binding]; other site 1280938014980 Walker B motif; other site 1280938014981 arginine finger; other site 1280938014982 poly(A) polymerase; Region: pcnB; TIGR01942 1280938014983 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1280938014984 active site 1280938014985 NTP binding site [chemical binding]; other site 1280938014986 metal binding triad [ion binding]; metal-binding site 1280938014987 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1280938014988 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1280938014989 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 1280938014990 catalytic center binding site [active] 1280938014991 ATP binding site [chemical binding]; other site 1280938014992 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 1280938014993 oligomerization interface [polypeptide binding]; other site 1280938014994 active site 1280938014995 metal binding site [ion binding]; metal-binding site 1280938014996 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1280938014997 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1280938014998 active site 1280938014999 ATP-binding site [chemical binding]; other site 1280938015000 pantoate-binding site; other site 1280938015001 HXXH motif; other site 1280938015002 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1280938015003 tetramerization interface [polypeptide binding]; other site 1280938015004 active site 1280938015005 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1280938015006 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 1280938015007 active site 1280938015008 dimer interface [polypeptide binding]; other site 1280938015009 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 1280938015010 dimer interface [polypeptide binding]; other site 1280938015011 active site 1280938015012 acetyl-CoA synthetase; Provisional; Region: PRK00174 1280938015013 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1280938015014 active site 1280938015015 CoA binding site [chemical binding]; other site 1280938015016 acyl-activating enzyme (AAE) consensus motif; other site 1280938015017 AMP binding site [chemical binding]; other site 1280938015018 acetate binding site [chemical binding]; other site 1280938015019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 1280938015020 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1280938015021 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1280938015022 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1280938015023 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1280938015024 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1280938015025 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1280938015026 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1280938015027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1280938015028 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1280938015029 BON domain; Region: BON; pfam04972 1280938015030 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1280938015031 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1280938015032 RNase E interface [polypeptide binding]; other site 1280938015033 trimer interface [polypeptide binding]; other site 1280938015034 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1280938015035 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1280938015036 RNase E interface [polypeptide binding]; other site 1280938015037 trimer interface [polypeptide binding]; other site 1280938015038 active site 1280938015039 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 1280938015040 putative nucleic acid binding region [nucleotide binding]; other site 1280938015041 G-X-X-G motif; other site 1280938015042 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 1280938015043 RNA binding site [nucleotide binding]; other site 1280938015044 domain interface; other site 1280938015045 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 1280938015046 16S/18S rRNA binding site [nucleotide binding]; other site 1280938015047 S13e-L30e interaction site [polypeptide binding]; other site 1280938015048 25S rRNA binding site [nucleotide binding]; other site 1280938015049 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1280938015050 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1280938015051 RNA binding site [nucleotide binding]; other site 1280938015052 active site 1280938015053 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1280938015054 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1280938015055 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1280938015056 translation initiation factor IF-2; Region: IF-2; TIGR00487 1280938015057 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1280938015058 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1280938015059 G1 box; other site 1280938015060 putative GEF interaction site [polypeptide binding]; other site 1280938015061 GTP/Mg2+ binding site [chemical binding]; other site 1280938015062 Switch I region; other site 1280938015063 G2 box; other site 1280938015064 G3 box; other site 1280938015065 Switch II region; other site 1280938015066 G4 box; other site 1280938015067 G5 box; other site 1280938015068 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 1280938015069 Translation-initiation factor 2; Region: IF-2; pfam11987 1280938015070 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 1280938015071 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1280938015072 NusA N-terminal domain; Region: NusA_N; pfam08529 1280938015073 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 1280938015074 RNA binding site [nucleotide binding]; other site 1280938015075 homodimer interface [polypeptide binding]; other site 1280938015076 NusA-like KH domain; Region: KH_5; pfam13184 1280938015077 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 1280938015078 G-X-X-G motif; other site 1280938015079 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1280938015080 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1280938015081 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1280938015082 Sm and related proteins; Region: Sm_like; cl00259 1280938015083 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1280938015084 putative oligomer interface [polypeptide binding]; other site 1280938015085 putative RNA binding site [nucleotide binding]; other site 1280938015086 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1280938015087 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 1280938015088 triosephosphate isomerase; Provisional; Region: PRK14567 1280938015089 substrate binding site [chemical binding]; other site 1280938015090 dimer interface [polypeptide binding]; other site 1280938015091 catalytic triad [active] 1280938015092 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1280938015093 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 1280938015094 active site 1280938015095 substrate binding site [chemical binding]; other site 1280938015096 metal binding site [ion binding]; metal-binding site 1280938015097 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 1280938015098 dihydropteroate synthase; Region: DHPS; TIGR01496 1280938015099 substrate binding pocket [chemical binding]; other site 1280938015100 dimer interface [polypeptide binding]; other site 1280938015101 inhibitor binding site; inhibition site 1280938015102 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1280938015103 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 1280938015104 Walker A motif; other site 1280938015105 ATP binding site [chemical binding]; other site 1280938015106 Walker B motif; other site 1280938015107 arginine finger; other site 1280938015108 Peptidase family M41; Region: Peptidase_M41; pfam01434 1280938015109 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1280938015110 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 1280938015111 S-adenosylmethionine binding site [chemical binding]; other site 1280938015112 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1280938015113 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1280938015114 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1280938015115 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1280938015116 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1280938015117 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938015118 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1280938015119 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1280938015120 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938015121 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1280938015122 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 1280938015123 IMP binding site; other site 1280938015124 dimer interface [polypeptide binding]; other site 1280938015125 interdomain contacts; other site 1280938015126 partial ornithine binding site; other site 1280938015127 leucine export protein LeuE; Provisional; Region: PRK10958 1280938015128 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1280938015129 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1280938015130 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1280938015131 catalytic site [active] 1280938015132 subunit interface [polypeptide binding]; other site 1280938015133 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1280938015134 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1280938015135 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1280938015136 chaperone protein DnaJ; Provisional; Region: PRK10767 1280938015137 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 1280938015138 HSP70 interaction site [polypeptide binding]; other site 1280938015139 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1280938015140 substrate binding site [polypeptide binding]; other site 1280938015141 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1280938015142 Zn binding sites [ion binding]; other site 1280938015143 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1280938015144 dimer interface [polypeptide binding]; other site 1280938015145 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1280938015146 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1280938015147 nucleotide binding site [chemical binding]; other site 1280938015148 GrpE; Region: GrpE; pfam01025 1280938015149 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 1280938015150 dimer interface [polypeptide binding]; other site 1280938015151 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1280938015152 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1280938015153 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1280938015154 Walker A/P-loop; other site 1280938015155 ATP binding site [chemical binding]; other site 1280938015156 Q-loop/lid; other site 1280938015157 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1280938015158 ABC transporter signature motif; other site 1280938015159 Walker B; other site 1280938015160 D-loop; other site 1280938015161 H-loop/switch region; other site 1280938015162 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1280938015163 metal binding site 2 [ion binding]; metal-binding site 1280938015164 putative DNA binding helix; other site 1280938015165 metal binding site 1 [ion binding]; metal-binding site 1280938015166 dimer interface [polypeptide binding]; other site 1280938015167 structural Zn2+ binding site [ion binding]; other site 1280938015168 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1280938015169 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1280938015170 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 1280938015171 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1280938015172 putative coenzyme Q binding site [chemical binding]; other site 1280938015173 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 1280938015174 SmpB-tmRNA interface; other site 1280938015175 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1280938015176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938015177 DNA-binding site [nucleotide binding]; DNA binding site 1280938015178 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1280938015179 glycolate transporter; Provisional; Region: PRK09695 1280938015180 L-lactate permease; Region: Lactate_perm; cl00701 1280938015181 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1280938015182 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 1280938015183 phosphate binding site [ion binding]; other site 1280938015184 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1280938015185 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938015186 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 1280938015187 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1280938015188 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1280938015189 Cysteine-rich domain; Region: CCG; pfam02754 1280938015190 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 1280938015191 spermidine synthase; Provisional; Region: PRK00811 1280938015192 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 1280938015193 S-adenosylmethionine binding site [chemical binding]; other site 1280938015194 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1280938015195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938015196 active site 1280938015197 phosphorylation site [posttranslational modification] 1280938015198 intermolecular recognition site; other site 1280938015199 dimerization interface [polypeptide binding]; other site 1280938015200 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 1280938015201 DNA binding site [nucleotide binding] 1280938015202 sensor protein QseC; Provisional; Region: PRK10337 1280938015203 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 1280938015204 dimer interface [polypeptide binding]; other site 1280938015205 phosphorylation site [posttranslational modification] 1280938015206 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 1280938015207 ATP binding site [chemical binding]; other site 1280938015208 Mg2+ binding site [ion binding]; other site 1280938015209 G-X-G motif; other site 1280938015210 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1280938015211 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1280938015212 DNA binding residues [nucleotide binding] 1280938015213 dimer interface [polypeptide binding]; other site 1280938015214 copper binding site [ion binding]; other site 1280938015215 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1280938015216 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1280938015217 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1280938015218 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 1280938015219 ATP binding site [chemical binding]; other site 1280938015220 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1280938015221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938015222 active site 1280938015223 phosphorylation site [posttranslational modification] 1280938015224 intermolecular recognition site; other site 1280938015225 dimerization interface [polypeptide binding]; other site 1280938015226 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938015227 Zn2+ binding site [ion binding]; other site 1280938015228 Mg2+ binding site [ion binding]; other site 1280938015229 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1280938015230 EamA-like transporter family; Region: EamA; pfam00892 1280938015231 EamA-like transporter family; Region: EamA; pfam00892 1280938015232 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938015233 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 1280938015234 putative DNA binding site [nucleotide binding]; other site 1280938015235 putative Zn2+ binding site [ion binding]; other site 1280938015236 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938015237 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1280938015238 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 1280938015239 dimer interface [polypeptide binding]; other site 1280938015240 active site 1280938015241 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1280938015242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938015243 NAD(P) binding site [chemical binding]; other site 1280938015244 active site 1280938015245 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938015246 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938015247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938015248 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 1280938015249 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 1280938015250 active site 2 [active] 1280938015251 active site 1 [active] 1280938015252 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 1280938015253 homodimer interface [polypeptide binding]; other site 1280938015254 chemical substrate binding site [chemical binding]; other site 1280938015255 oligomer interface [polypeptide binding]; other site 1280938015256 metal binding site [ion binding]; metal-binding site 1280938015257 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 1280938015258 S-adenosylmethionine binding site [chemical binding]; other site 1280938015259 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1280938015260 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1280938015261 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 1280938015262 putative active site [active] 1280938015263 catalytic site [active] 1280938015264 putative metal binding site [ion binding]; other site 1280938015265 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1280938015266 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1280938015267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938015268 Coenzyme A binding pocket [chemical binding]; other site 1280938015269 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 1280938015270 glycine cleavage system protein H; Provisional; Region: PRK13380 1280938015271 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 1280938015272 lipoyl attachment site [posttranslational modification]; other site 1280938015273 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1280938015274 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1280938015275 AAA domain; Region: AAA_17; pfam13207 1280938015276 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 1280938015277 S-adenosylmethionine binding site [chemical binding]; other site 1280938015278 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1280938015279 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1280938015280 active site 1280938015281 catalytic triad [active] 1280938015282 dimer interface [polypeptide binding]; other site 1280938015283 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1280938015284 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 1280938015285 active site 1280938015286 DNA binding site [nucleotide binding] 1280938015287 Int/Topo IB signature motif; other site 1280938015288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1280938015289 Transposase; Region: HTH_Tnp_1; pfam01527 1280938015290 HTH-like domain; Region: HTH_21; pfam13276 1280938015291 Integrase core domain; Region: rve; pfam00665 1280938015292 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1280938015293 Integrase core domain; Region: rve; pfam00665 1280938015294 Integrase core domain; Region: rve_3; cl15866 1280938015295 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1280938015296 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1280938015297 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938015298 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 1280938015299 S-adenosylmethionine binding site [chemical binding]; other site 1280938015300 Amino acid permease; Region: AA_permease; pfam00324 1280938015301 hypothetical protein; Provisional; Region: PRK07036 1280938015302 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 1280938015303 inhibitor-cofactor binding pocket; inhibition site 1280938015304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938015305 catalytic residue [active] 1280938015306 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1280938015307 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 1280938015308 DNA binding residues [nucleotide binding] 1280938015309 dimerization interface [polypeptide binding]; other site 1280938015310 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1280938015311 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1280938015312 G1 box; other site 1280938015313 putative GEF interaction site [polypeptide binding]; other site 1280938015314 GTP/Mg2+ binding site [chemical binding]; other site 1280938015315 Switch I region; other site 1280938015316 G2 box; other site 1280938015317 G3 box; other site 1280938015318 Switch II region; other site 1280938015319 G4 box; other site 1280938015320 G5 box; other site 1280938015321 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1280938015322 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1280938015323 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1280938015324 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1280938015325 selenocysteine synthase; Provisional; Region: PRK04311 1280938015326 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1280938015327 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938015328 catalytic residue [active] 1280938015329 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 1280938015330 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1280938015331 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1280938015332 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1280938015333 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1280938015334 4Fe-4S binding domain; Region: Fer4; cl02805 1280938015335 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1280938015336 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1280938015337 molybdopterin cofactor binding site; other site 1280938015338 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1280938015339 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1280938015340 molybdopterin cofactor binding site; other site 1280938015341 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1280938015342 Lipase (class 2); Region: Lipase_2; pfam01674 1280938015343 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1280938015344 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 1280938015345 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1280938015346 active site 1280938015347 FMN binding site [chemical binding]; other site 1280938015348 2,4-decadienoyl-CoA binding site; other site 1280938015349 catalytic residue [active] 1280938015350 4Fe-4S cluster binding site [ion binding]; other site 1280938015351 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1280938015352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938015353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1280938015354 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1280938015355 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1280938015356 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1280938015357 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1280938015358 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1280938015359 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1280938015360 Ligand binding site; other site 1280938015361 Putative Catalytic site; other site 1280938015362 DXD motif; other site 1280938015363 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1280938015364 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1280938015365 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 1280938015366 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1280938015367 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1280938015368 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1280938015369 PhoU domain; Region: PhoU; pfam01895 1280938015370 magnesium-transporting ATPase; Provisional; Region: PRK15122 1280938015371 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1280938015372 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1280938015373 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1280938015374 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1280938015375 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1280938015376 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 1280938015377 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 1280938015378 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 1280938015379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938015380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938015381 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1280938015382 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 1280938015383 CoenzymeA binding site [chemical binding]; other site 1280938015384 subunit interaction site [polypeptide binding]; other site 1280938015385 PHB binding site; other site 1280938015386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938015387 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938015388 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1280938015389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938015390 NAD(P) binding site [chemical binding]; other site 1280938015391 active site 1280938015392 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1280938015393 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1280938015394 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1280938015395 EamA-like transporter family; Region: EamA; pfam00892 1280938015396 EamA-like transporter family; Region: EamA; pfam00892 1280938015397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 1280938015398 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 1280938015399 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938015400 Nicotianamine synthase protein; Region: NAS; cl17658 1280938015401 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1280938015402 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 1280938015403 N-terminal plug; other site 1280938015404 ligand-binding site [chemical binding]; other site 1280938015405 Predicted membrane protein [Function unknown]; Region: COG3503 1280938015406 arginine decarboxylase; Provisional; Region: PRK05354 1280938015407 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1280938015408 dimer interface [polypeptide binding]; other site 1280938015409 active site 1280938015410 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1280938015411 catalytic residues [active] 1280938015412 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1280938015413 translation initiation factor Sui1; Validated; Region: PRK06824 1280938015414 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1280938015415 putative rRNA binding site [nucleotide binding]; other site 1280938015416 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 1280938015417 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 1280938015418 nudix motif; other site 1280938015419 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1280938015420 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1280938015421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938015422 active site 1280938015423 phosphorylation site [posttranslational modification] 1280938015424 intermolecular recognition site; other site 1280938015425 dimerization interface [polypeptide binding]; other site 1280938015426 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938015427 metal binding site [ion binding]; metal-binding site 1280938015428 active site 1280938015429 I-site; other site 1280938015430 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938015431 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938015432 dimer interface [polypeptide binding]; other site 1280938015433 putative CheW interface [polypeptide binding]; other site 1280938015434 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1280938015435 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1280938015436 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 1280938015437 DsbD alpha interface [polypeptide binding]; other site 1280938015438 catalytic residues [active] 1280938015439 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 1280938015440 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1280938015441 active site 1280938015442 trimer interface [polypeptide binding]; other site 1280938015443 dimer interface [polypeptide binding]; other site 1280938015444 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1280938015445 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 1280938015446 carboxyltransferase (CT) interaction site; other site 1280938015447 biotinylation site [posttranslational modification]; other site 1280938015448 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1280938015449 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938015450 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1280938015451 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1280938015452 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1280938015453 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 1280938015454 S-adenosylmethionine binding site [chemical binding]; other site 1280938015455 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1280938015456 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1280938015457 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1280938015458 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 1280938015459 FMN binding site [chemical binding]; other site 1280938015460 active site 1280938015461 catalytic residues [active] 1280938015462 substrate binding site [chemical binding]; other site 1280938015463 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1280938015464 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1280938015465 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1280938015466 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 1280938015467 purine monophosphate binding site [chemical binding]; other site 1280938015468 dimer interface [polypeptide binding]; other site 1280938015469 putative catalytic residues [active] 1280938015470 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1280938015471 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1280938015472 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1280938015473 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1280938015474 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1280938015475 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1280938015476 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1280938015477 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1280938015478 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 1280938015479 dimer interface [polypeptide binding]; other site 1280938015480 phosphorylation site [posttranslational modification] 1280938015481 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 1280938015482 ATP binding site [chemical binding]; other site 1280938015483 Mg2+ binding site [ion binding]; other site 1280938015484 G-X-G motif; other site 1280938015485 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938015486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938015487 active site 1280938015488 phosphorylation site [posttranslational modification] 1280938015489 intermolecular recognition site; other site 1280938015490 dimerization interface [polypeptide binding]; other site 1280938015491 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938015492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938015493 active site 1280938015494 phosphorylation site [posttranslational modification] 1280938015495 intermolecular recognition site; other site 1280938015496 dimerization interface [polypeptide binding]; other site 1280938015497 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1280938015498 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1280938015499 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1280938015500 putative ligand binding site [chemical binding]; other site 1280938015501 HEAT repeats; Region: HEAT_2; pfam13646 1280938015502 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 1280938015503 TM-ABC transporter signature motif; other site 1280938015504 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 1280938015505 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1280938015506 TM-ABC transporter signature motif; other site 1280938015507 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1280938015508 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1280938015509 Walker A/P-loop; other site 1280938015510 ATP binding site [chemical binding]; other site 1280938015511 Q-loop/lid; other site 1280938015512 ABC transporter signature motif; other site 1280938015513 Walker B; other site 1280938015514 D-loop; other site 1280938015515 H-loop/switch region; other site 1280938015516 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1280938015517 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1280938015518 Walker A/P-loop; other site 1280938015519 ATP binding site [chemical binding]; other site 1280938015520 Q-loop/lid; other site 1280938015521 ABC transporter signature motif; other site 1280938015522 Walker B; other site 1280938015523 D-loop; other site 1280938015524 H-loop/switch region; other site 1280938015525 putative acetyltransferase; Provisional; Region: PRK03624 1280938015526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938015527 Coenzyme A binding pocket [chemical binding]; other site 1280938015528 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1280938015529 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 1280938015530 alpha-gamma subunit interface [polypeptide binding]; other site 1280938015531 beta-gamma subunit interface [polypeptide binding]; other site 1280938015532 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1280938015533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938015534 Coenzyme A binding pocket [chemical binding]; other site 1280938015535 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 1280938015536 gamma-beta subunit interface [polypeptide binding]; other site 1280938015537 alpha-beta subunit interface [polypeptide binding]; other site 1280938015538 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1280938015539 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 1280938015540 subunit interactions [polypeptide binding]; other site 1280938015541 active site 1280938015542 flap region; other site 1280938015543 hypothetical protein; Provisional; Region: PRK11019 1280938015544 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 1280938015545 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1280938015546 tetramer interface [polypeptide binding]; other site 1280938015547 active site 1280938015548 Mg2+/Mn2+ binding site [ion binding]; other site 1280938015549 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1280938015550 putative chaperone; Provisional; Region: PRK11678 1280938015551 nucleotide binding site [chemical binding]; other site 1280938015552 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1280938015553 SBD interface [polypeptide binding]; other site 1280938015554 psiF repeat; Region: PsiF_repeat; pfam07769 1280938015555 psiF repeat; Region: PsiF_repeat; pfam07769 1280938015556 psiF repeat; Region: PsiF_repeat; pfam07769 1280938015557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1280938015558 MOSC domain; Region: MOSC; pfam03473 1280938015559 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1280938015560 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1280938015561 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1280938015562 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1280938015563 DNA binding residues [nucleotide binding] 1280938015564 drug binding residues [chemical binding]; other site 1280938015565 dimer interface [polypeptide binding]; other site 1280938015566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1280938015567 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1280938015568 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1280938015569 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1280938015570 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1280938015571 dinuclear metal binding motif [ion binding]; other site 1280938015572 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1280938015573 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 1280938015574 Moco binding site; other site 1280938015575 metal coordination site [ion binding]; other site 1280938015576 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1280938015577 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1280938015578 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1280938015579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938015580 active site 1280938015581 phosphorylation site [posttranslational modification] 1280938015582 intermolecular recognition site; other site 1280938015583 dimerization interface [polypeptide binding]; other site 1280938015584 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 1280938015585 DNA binding site [nucleotide binding] 1280938015586 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1280938015587 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 1280938015588 dimerization interface [polypeptide binding]; other site 1280938015589 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 1280938015590 dimer interface [polypeptide binding]; other site 1280938015591 phosphorylation site [posttranslational modification] 1280938015592 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 1280938015593 ATP binding site [chemical binding]; other site 1280938015594 Mg2+ binding site [ion binding]; other site 1280938015595 G-X-G motif; other site 1280938015596 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 1280938015597 putative MFS family transporter protein; Provisional; Region: PRK03633 1280938015598 putative substrate translocation pore; other site 1280938015599 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1280938015600 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 1280938015601 putative di-iron ligands [ion binding]; other site 1280938015602 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 1280938015603 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1280938015604 FAD binding pocket [chemical binding]; other site 1280938015605 FAD binding motif [chemical binding]; other site 1280938015606 phosphate binding motif [ion binding]; other site 1280938015607 beta-alpha-beta structure motif; other site 1280938015608 NAD binding pocket [chemical binding]; other site 1280938015609 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 1280938015610 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1280938015611 catalytic loop [active] 1280938015612 iron binding site [ion binding]; other site 1280938015613 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1280938015614 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938015615 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1280938015616 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 1280938015617 dimer interface [polypeptide binding]; other site 1280938015618 catalytic residues [active] 1280938015619 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1280938015620 UreF; Region: UreF; pfam01730 1280938015621 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1280938015622 G1 box; other site 1280938015623 GTP/Mg2+ binding site [chemical binding]; other site 1280938015624 G2 box; other site 1280938015625 Switch I region; other site 1280938015626 G3 box; other site 1280938015627 Switch II region; other site 1280938015628 G4 box; other site 1280938015629 G5 box; other site 1280938015630 HupE / UreJ protein; Region: HupE_UreJ; cl01011 1280938015631 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1280938015632 FecR protein; Region: FecR; pfam04773 1280938015633 RNA polymerase sigma factor; Provisional; Region: PRK12529 1280938015634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1280938015635 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 1280938015636 DNA binding residues [nucleotide binding] 1280938015637 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938015638 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1280938015639 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 1280938015640 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 1280938015641 outer membrane porin, OprD family; Region: OprD; pfam03573 1280938015642 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 1280938015643 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1280938015644 NAD(P) binding site [chemical binding]; other site 1280938015645 catalytic residues [active] 1280938015646 benzoate transport; Region: 2A0115; TIGR00895 1280938015647 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 1280938015648 putative substrate translocation pore; other site 1280938015649 benzoylformate decarboxylase; Reviewed; Region: PRK07092 1280938015650 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1280938015651 PYR/PP interface [polypeptide binding]; other site 1280938015652 dimer interface [polypeptide binding]; other site 1280938015653 TPP binding site [chemical binding]; other site 1280938015654 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938015655 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1280938015656 TPP-binding site [chemical binding]; other site 1280938015657 dimer interface [polypeptide binding]; other site 1280938015658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938015659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938015660 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1280938015661 substrate binding pocket [chemical binding]; other site 1280938015662 dimerization interface [polypeptide binding]; other site 1280938015663 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 1280938015664 putative substrate translocation pore; other site 1280938015665 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1280938015666 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1280938015667 iron-sulfur cluster [ion binding]; other site 1280938015668 [2Fe-2S] cluster binding site [ion binding]; other site 1280938015669 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 1280938015670 alpha subunit interface [polypeptide binding]; other site 1280938015671 active site 1280938015672 substrate binding site [chemical binding]; other site 1280938015673 Fe binding site [ion binding]; other site 1280938015674 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1280938015675 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 1280938015676 FMN-binding pocket [chemical binding]; other site 1280938015677 flavin binding motif; other site 1280938015678 phosphate binding motif [ion binding]; other site 1280938015679 beta-alpha-beta structure motif; other site 1280938015680 NAD binding pocket [chemical binding]; other site 1280938015681 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 1280938015682 catalytic loop [active] 1280938015683 iron binding site [ion binding]; other site 1280938015684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938015685 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1280938015686 DNA-binding site [nucleotide binding]; DNA binding site 1280938015687 FCD domain; Region: FCD; pfam07729 1280938015688 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1280938015689 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1280938015690 putative NAD(P) binding site [chemical binding]; other site 1280938015691 homodimer interface [polypeptide binding]; other site 1280938015692 homotetramer interface [polypeptide binding]; other site 1280938015693 active site 1280938015694 ornithine cyclodeaminase; Validated; Region: PRK06141 1280938015695 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1280938015696 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1280938015697 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1280938015698 Walker A/P-loop; other site 1280938015699 ATP binding site [chemical binding]; other site 1280938015700 Q-loop/lid; other site 1280938015701 ABC transporter signature motif; other site 1280938015702 Walker B; other site 1280938015703 D-loop; other site 1280938015704 H-loop/switch region; other site 1280938015705 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1280938015706 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1280938015707 Walker A/P-loop; other site 1280938015708 ATP binding site [chemical binding]; other site 1280938015709 Q-loop/lid; other site 1280938015710 ABC transporter signature motif; other site 1280938015711 Walker B; other site 1280938015712 D-loop; other site 1280938015713 H-loop/switch region; other site 1280938015714 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1280938015715 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1280938015716 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 1280938015717 TM-ABC transporter signature motif; other site 1280938015718 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1280938015719 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 1280938015720 TM-ABC transporter signature motif; other site 1280938015721 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1280938015722 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 1280938015723 dimerization interface [polypeptide binding]; other site 1280938015724 ligand binding site [chemical binding]; other site 1280938015725 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938015726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938015727 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 1280938015728 dimerization interface [polypeptide binding]; other site 1280938015729 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1280938015730 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 1280938015731 dimerization interface [polypeptide binding]; other site 1280938015732 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1280938015733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938015734 dimer interface [polypeptide binding]; other site 1280938015735 putative CheW interface [polypeptide binding]; other site 1280938015736 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1280938015737 nudix motif; other site 1280938015738 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 1280938015739 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 1280938015740 active site 1280938015741 nucleotide binding site [chemical binding]; other site 1280938015742 HIGH motif; other site 1280938015743 KMSKS motif; other site 1280938015744 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 1280938015745 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938015746 catalytic triad [active] 1280938015747 metal binding site [ion binding]; metal-binding site 1280938015748 conserved cis-peptide bond; other site 1280938015749 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1280938015750 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 1280938015751 active site 1280938015752 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1280938015753 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 1280938015754 homodimer interface [polypeptide binding]; other site 1280938015755 NAD binding pocket [chemical binding]; other site 1280938015756 ATP binding pocket [chemical binding]; other site 1280938015757 Mg binding site [ion binding]; other site 1280938015758 active-site loop [active] 1280938015759 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1280938015760 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 1280938015761 active site 1280938015762 catalytic triad [active] 1280938015763 oxyanion hole [active] 1280938015764 Azurin [Energy production and conversion]; Region: COG3241 1280938015765 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1280938015766 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938015767 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938015768 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1280938015769 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938015770 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1280938015771 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1280938015772 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1280938015773 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1280938015774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1280938015775 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1280938015776 hypothetical protein; Provisional; Region: PRK01254 1280938015777 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1280938015778 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1280938015779 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1280938015780 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1280938015781 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938015782 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938015783 metal binding site [ion binding]; metal-binding site 1280938015784 active site 1280938015785 I-site; other site 1280938015786 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1280938015787 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1280938015788 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1280938015789 active site 1280938015790 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1280938015791 substrate binding site [chemical binding]; other site 1280938015792 catalytic residues [active] 1280938015793 dimer interface [polypeptide binding]; other site 1280938015794 replicative DNA helicase; Provisional; Region: PRK05748 1280938015795 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1280938015796 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 1280938015797 Walker A motif; other site 1280938015798 ATP binding site [chemical binding]; other site 1280938015799 Walker B motif; other site 1280938015800 DNA binding loops [nucleotide binding] 1280938015801 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1280938015802 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1280938015803 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1280938015804 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1280938015805 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1280938015806 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1280938015807 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1280938015808 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1280938015809 exoribonuclease R; Provisional; Region: PRK11642 1280938015810 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1280938015811 RNB domain; Region: RNB; pfam00773 1280938015812 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 1280938015813 RNA binding site [nucleotide binding]; other site 1280938015814 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1280938015815 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 1280938015816 GDP-binding site [chemical binding]; other site 1280938015817 ACT binding site; other site 1280938015818 IMP binding site; other site 1280938015819 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1280938015820 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 1280938015821 dimer interface [polypeptide binding]; other site 1280938015822 motif 1; other site 1280938015823 active site 1280938015824 motif 2; other site 1280938015825 motif 3; other site 1280938015826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1280938015827 FtsH protease regulator HflC; Provisional; Region: PRK11029 1280938015828 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 1280938015829 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1280938015830 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 1280938015831 HflK protein; Region: hflK; TIGR01933 1280938015832 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1280938015833 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1280938015834 HflX GTPase family; Region: HflX; cd01878 1280938015835 G1 box; other site 1280938015836 GTP/Mg2+ binding site [chemical binding]; other site 1280938015837 Switch I region; other site 1280938015838 G2 box; other site 1280938015839 G3 box; other site 1280938015840 Switch II region; other site 1280938015841 G4 box; other site 1280938015842 G5 box; other site 1280938015843 bacterial Hfq-like; Region: Hfq; cd01716 1280938015844 hexamer interface [polypeptide binding]; other site 1280938015845 Sm1 motif; other site 1280938015846 RNA binding site [nucleotide binding]; other site 1280938015847 Sm2 motif; other site 1280938015848 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1280938015849 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1280938015850 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1280938015851 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 1280938015852 ATP binding site [chemical binding]; other site 1280938015853 Mg2+ binding site [ion binding]; other site 1280938015854 G-X-G motif; other site 1280938015855 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 1280938015856 ATP binding site [chemical binding]; other site 1280938015857 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1280938015858 AMIN domain; Region: AMIN; pfam11741 1280938015859 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1280938015860 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 1280938015861 active site 1280938015862 metal binding site [ion binding]; metal-binding site 1280938015863 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1280938015864 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938015865 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1280938015866 putative carbohydrate kinase; Provisional; Region: PRK10565 1280938015867 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1280938015868 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 1280938015869 putative substrate binding site [chemical binding]; other site 1280938015870 putative ATP binding site [chemical binding]; other site 1280938015871 epoxyqueuosine reductase; Region: TIGR00276 1280938015872 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1280938015873 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1280938015874 catalytic site [active] 1280938015875 putative active site [active] 1280938015876 putative substrate binding site [chemical binding]; other site 1280938015877 dimer interface [polypeptide binding]; other site 1280938015878 GTPase RsgA; Reviewed; Region: PRK12288 1280938015879 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 1280938015880 RNA binding site [nucleotide binding]; other site 1280938015881 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1280938015882 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1280938015883 GTP/Mg2+ binding site [chemical binding]; other site 1280938015884 G4 box; other site 1280938015885 G5 box; other site 1280938015886 G1 box; other site 1280938015887 Switch I region; other site 1280938015888 G2 box; other site 1280938015889 G3 box; other site 1280938015890 Switch II region; other site 1280938015891 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1280938015892 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1280938015893 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1280938015894 ligand binding site [chemical binding]; other site 1280938015895 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1280938015896 flagellar motor protein MotA; Validated; Region: PRK09110 1280938015897 HDOD domain; Region: HDOD; pfam08668 1280938015898 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1280938015899 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 1280938015900 active site residue [active] 1280938015901 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 1280938015902 active site residue [active] 1280938015903 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1280938015904 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1280938015905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1280938015906 active site 1280938015907 phosphorylation site [posttranslational modification] 1280938015908 dimerization interface [polypeptide binding]; other site 1280938015909 PAS fold; Region: PAS; pfam00989 1280938015910 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 1280938015911 putative active site [active] 1280938015912 heme pocket [chemical binding]; other site 1280938015913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938015914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938015915 metal binding site [ion binding]; metal-binding site 1280938015916 active site 1280938015917 I-site; other site 1280938015918 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 1280938015919 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1280938015920 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1280938015921 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1280938015922 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 1280938015923 motif II; other site 1280938015924 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1280938015925 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1280938015926 metal binding site [ion binding]; metal-binding site 1280938015927 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 1280938015928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1280938015929 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1280938015930 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1280938015931 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 1280938015932 CAP-like domain; other site 1280938015933 active site 1280938015934 primary dimer interface [polypeptide binding]; other site 1280938015935 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1280938015936 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1280938015937 catalytic motif [active] 1280938015938 Catalytic residue [active] 1280938015939 SdiA-regulated; Region: SdiA-regulated; cd09971 1280938015940 putative active site [active] 1280938015941 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1280938015942 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 1280938015943 ATP binding site [chemical binding]; other site 1280938015944 Mg2+ binding site [ion binding]; other site 1280938015945 G-X-G motif; other site 1280938015946 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 1280938015947 anchoring element; other site 1280938015948 dimer interface [polypeptide binding]; other site 1280938015949 ATP binding site [chemical binding]; other site 1280938015950 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 1280938015951 active site 1280938015952 metal binding site [ion binding]; metal-binding site 1280938015953 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1280938015954 Predicted esterase [General function prediction only]; Region: COG3150 1280938015955 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1280938015956 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1280938015957 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1280938015958 active site 1280938015959 metal binding site [ion binding]; metal-binding site 1280938015960 hexamer interface [polypeptide binding]; other site 1280938015961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3151 1280938015962 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1280938015963 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 1280938015964 dimer interface [polypeptide binding]; other site 1280938015965 ADP-ribose binding site [chemical binding]; other site 1280938015966 active site 1280938015967 nudix motif; other site 1280938015968 metal binding site [ion binding]; metal-binding site 1280938015969 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1280938015970 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1280938015971 ThiC-associated domain; Region: ThiC-associated; pfam13667 1280938015972 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1280938015973 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1280938015974 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1280938015975 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1280938015976 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1280938015977 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 1280938015978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938015979 homodimer interface [polypeptide binding]; other site 1280938015980 catalytic residue [active] 1280938015981 hypothetical protein; Provisional; Region: PRK07524 1280938015982 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1280938015983 PYR/PP interface [polypeptide binding]; other site 1280938015984 dimer interface [polypeptide binding]; other site 1280938015985 TPP binding site [chemical binding]; other site 1280938015986 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938015987 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 1280938015988 TPP-binding site [chemical binding]; other site 1280938015989 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1280938015990 CoA binding domain; Region: CoA_binding_2; pfam13380 1280938015991 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1280938015992 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1280938015993 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938015994 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938015995 active site 1280938015996 enoyl-CoA hydratase; Provisional; Region: PRK06688 1280938015997 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 1280938015998 substrate binding site [chemical binding]; other site 1280938015999 oxyanion hole (OAH) forming residues; other site 1280938016000 trimer interface [polypeptide binding]; other site 1280938016001 S-methylmethionine transporter; Provisional; Region: PRK11387 1280938016002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1280938016003 HAMP domain; Region: HAMP; pfam00672 1280938016004 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 1280938016005 dimer interface [polypeptide binding]; other site 1280938016006 phosphorylation site [posttranslational modification] 1280938016007 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 1280938016008 ATP binding site [chemical binding]; other site 1280938016009 Mg2+ binding site [ion binding]; other site 1280938016010 G-X-G motif; other site 1280938016011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938016012 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938016013 active site 1280938016014 phosphorylation site [posttranslational modification] 1280938016015 intermolecular recognition site; other site 1280938016016 dimerization interface [polypeptide binding]; other site 1280938016017 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938016018 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 1280938016019 substrate binding pocket [chemical binding]; other site 1280938016020 membrane-bound complex binding site; other site 1280938016021 hinge residues; other site 1280938016022 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 1280938016023 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938016024 active site 1280938016025 phosphorylation site [posttranslational modification] 1280938016026 intermolecular recognition site; other site 1280938016027 dimerization interface [polypeptide binding]; other site 1280938016028 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 1280938016029 DNA binding site [nucleotide binding] 1280938016030 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1280938016031 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938016032 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1280938016033 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1280938016034 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1280938016035 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1280938016036 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 1280938016037 putative active site [active] 1280938016038 putative FMN binding site [chemical binding]; other site 1280938016039 putative substrate binding site [chemical binding]; other site 1280938016040 putative catalytic residue [active] 1280938016041 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1280938016042 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 1280938016043 non-specific DNA binding site [nucleotide binding]; other site 1280938016044 salt bridge; other site 1280938016045 sequence-specific DNA binding site [nucleotide binding]; other site 1280938016046 Cupin domain; Region: Cupin_2; pfam07883 1280938016047 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1280938016048 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1280938016049 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 1280938016050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938016051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938016052 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 1280938016053 dimerization interface [polypeptide binding]; other site 1280938016054 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1280938016055 FAD dependent oxidoreductase; Region: DAO; pfam01266 1280938016056 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938016057 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 1280938016058 active site 1280938016059 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1280938016060 catalytic tetrad [active] 1280938016061 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938016062 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938016063 active site 1280938016064 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1280938016065 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938016066 active site 1280938016067 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1280938016068 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 1280938016069 putative ribose interaction site [chemical binding]; other site 1280938016070 putative ADP binding site [chemical binding]; other site 1280938016071 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1280938016072 active site 1280938016073 nucleotide binding site [chemical binding]; other site 1280938016074 HIGH motif; other site 1280938016075 KMSKS motif; other site 1280938016076 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1280938016077 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1280938016078 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1280938016079 Walker A/P-loop; other site 1280938016080 ATP binding site [chemical binding]; other site 1280938016081 Q-loop/lid; other site 1280938016082 ABC transporter signature motif; other site 1280938016083 Walker B; other site 1280938016084 D-loop; other site 1280938016085 H-loop/switch region; other site 1280938016086 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 1280938016087 active site 1280938016088 substrate binding site [chemical binding]; other site 1280938016089 ATP binding site [chemical binding]; other site 1280938016090 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1280938016091 O-Antigen ligase; Region: Wzy_C; pfam04932 1280938016092 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1280938016093 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 1280938016094 active site 1280938016095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938016096 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1280938016097 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1280938016098 Mig-14; Region: Mig-14; pfam07395 1280938016099 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1280938016100 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 1280938016101 putative ADP-binding pocket [chemical binding]; other site 1280938016102 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938016103 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1280938016104 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1280938016105 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1280938016106 active site 1280938016107 ATP binding site [chemical binding]; other site 1280938016108 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1280938016109 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1280938016110 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1280938016111 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1280938016112 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938016113 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 1280938016114 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1280938016115 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 1280938016116 putative active site [active] 1280938016117 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1280938016118 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 1280938016119 putative active site [active] 1280938016120 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1280938016121 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 1280938016122 homodimer interface [polypeptide binding]; other site 1280938016123 substrate-cofactor binding pocket; other site 1280938016124 catalytic residue [active] 1280938016125 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1280938016126 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1280938016127 metal binding triad; other site 1280938016128 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1280938016129 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1280938016130 metal binding triad; other site 1280938016131 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1280938016132 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1280938016133 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 1280938016134 dimer interface [polypeptide binding]; other site 1280938016135 TPP-binding site [chemical binding]; other site 1280938016136 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1280938016137 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_long; TIGR01348 1280938016138 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 1280938016139 E3 interaction surface; other site 1280938016140 lipoyl attachment site [posttranslational modification]; other site 1280938016141 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 1280938016142 E3 interaction surface; other site 1280938016143 lipoyl attachment site [posttranslational modification]; other site 1280938016144 e3 binding domain; Region: E3_binding; pfam02817 1280938016145 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1280938016146 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1280938016147 GAF domain; Region: GAF; pfam01590 1280938016148 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 1280938016149 PAS domain; Region: PAS_9; pfam13426 1280938016150 putative active site [active] 1280938016151 heme pocket [chemical binding]; other site 1280938016152 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938016153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938016154 metal binding site [ion binding]; metal-binding site 1280938016155 active site 1280938016156 I-site; other site 1280938016157 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 1280938016158 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1280938016159 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1280938016160 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1280938016161 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1280938016162 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938016163 active site 1280938016164 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1280938016165 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 1280938016166 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1280938016167 TrkA-C domain; Region: TrkA_C; pfam02080 1280938016168 Transporter associated domain; Region: CorC_HlyC; smart01091 1280938016169 hypothetical protein; Provisional; Region: PRK11281 1280938016170 Vegetative insecticide protein 3A N terminal; Region: Vip3A_N; pfam12495 1280938016171 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1280938016172 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938016173 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1280938016174 hypothetical protein; Validated; Region: PRK00029 1280938016175 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1280938016176 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1280938016177 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 1280938016178 homodimer interface [polypeptide binding]; other site 1280938016179 substrate-cofactor binding pocket; other site 1280938016180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938016181 catalytic residue [active] 1280938016182 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 1280938016183 CoenzymeA binding site [chemical binding]; other site 1280938016184 subunit interaction site [polypeptide binding]; other site 1280938016185 PHB binding site; other site 1280938016186 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 1280938016187 Ligand Binding Site [chemical binding]; other site 1280938016188 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 1280938016189 Ligand Binding Site [chemical binding]; other site 1280938016190 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1280938016191 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 1280938016192 P-loop; other site 1280938016193 Magnesium ion binding site [ion binding]; other site 1280938016194 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 1280938016195 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1280938016196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938016197 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1280938016198 dimerization interface [polypeptide binding]; other site 1280938016199 substrate binding pocket [chemical binding]; other site 1280938016200 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 1280938016201 putative substrate translocation pore; other site 1280938016202 short chain dehydrogenase; Provisional; Region: PRK06197 1280938016203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938016204 NAD(P) binding site [chemical binding]; other site 1280938016205 active site 1280938016206 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938016207 Helix-turn-helix domain; Region: HTH_18; pfam12833 1280938016208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938016209 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1280938016210 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 1280938016211 substrate binding site [chemical binding]; other site 1280938016212 active site 1280938016213 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1280938016214 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938016215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938016216 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1280938016217 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 1280938016218 active site 1280938016219 dimer interface [polypeptide binding]; other site 1280938016220 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1280938016221 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 1280938016222 active site 1280938016223 FMN binding site [chemical binding]; other site 1280938016224 substrate binding site [chemical binding]; other site 1280938016225 3Fe-4S cluster binding site [ion binding]; other site 1280938016226 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 1280938016227 domain interface; other site 1280938016228 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1280938016229 AAA ATPase domain; Region: AAA_16; pfam13191 1280938016230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 1280938016231 Sporulation related domain; Region: SPOR; pfam05036 1280938016232 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1280938016233 active site 1280938016234 dimer interface [polypeptide binding]; other site 1280938016235 metal binding site [ion binding]; metal-binding site 1280938016236 shikimate kinase; Reviewed; Region: aroK; PRK00131 1280938016237 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 1280938016238 ADP binding site [chemical binding]; other site 1280938016239 magnesium binding site [ion binding]; other site 1280938016240 putative shikimate binding site; other site 1280938016241 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 1280938016242 AMIN domain; Region: AMIN; pfam11741 1280938016243 Secretin and TonB N terminus short domain; Region: STN; smart00965 1280938016244 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1280938016245 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1280938016246 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1280938016247 Pilus assembly protein, PilP; Region: PilP; pfam04351 1280938016248 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 1280938016249 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1280938016250 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1280938016251 Competence protein A; Region: Competence_A; pfam11104 1280938016252 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1280938016253 nucleotide binding site [chemical binding]; other site 1280938016254 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1280938016255 Transglycosylase; Region: Transgly; pfam00912 1280938016256 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1280938016257 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1280938016258 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1280938016259 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1280938016260 putative NAD(P) binding site [chemical binding]; other site 1280938016261 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1280938016262 Peptidase family M48; Region: Peptidase_M48; pfam01435 1280938016263 Staphylococcal nuclease homologues; Region: SNc; smart00318 1280938016264 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1280938016265 Catalytic site; other site 1280938016266 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1280938016267 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1280938016268 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 1280938016269 ATP binding site [chemical binding]; other site 1280938016270 putative Mg++ binding site [ion binding]; other site 1280938016271 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1280938016272 nucleotide binding region [chemical binding]; other site 1280938016273 ATP-binding site [chemical binding]; other site 1280938016274 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1280938016275 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1280938016276 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1280938016277 active site 1280938016278 HIGH motif; other site 1280938016279 KMSK motif region; other site 1280938016280 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1280938016281 tRNA binding surface [nucleotide binding]; other site 1280938016282 anticodon binding site; other site 1280938016283 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1280938016284 Sporulation related domain; Region: SPOR; pfam05036 1280938016285 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 1280938016286 active site 1280938016287 HslU subunit interaction site [polypeptide binding]; other site 1280938016288 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1280938016289 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 1280938016290 Walker A motif; other site 1280938016291 ATP binding site [chemical binding]; other site 1280938016292 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1280938016293 Walker B motif; other site 1280938016294 arginine finger; other site 1280938016295 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1280938016296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1280938016297 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1280938016298 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1280938016299 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1280938016300 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1280938016301 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1280938016302 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1280938016303 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1280938016304 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938016305 Bacterial transcriptional repressor; Region: TetR; pfam13972 1280938016306 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1280938016307 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1280938016308 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 1280938016309 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1280938016310 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 1280938016311 S-adenosylmethionine binding site [chemical binding]; other site 1280938016312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1280938016313 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1280938016314 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1280938016315 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1280938016316 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1280938016317 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 1280938016318 metal binding site [ion binding]; metal-binding site 1280938016319 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 1280938016320 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1280938016321 sec-independent translocase; Provisional; Region: tatB; PRK00404 1280938016322 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1280938016323 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1280938016324 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1280938016325 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1280938016326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1280938016327 dimer interface [polypeptide binding]; other site 1280938016328 putative CheW interface [polypeptide binding]; other site 1280938016329 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 1280938016330 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1280938016331 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1280938016332 Walker A/P-loop; other site 1280938016333 ATP binding site [chemical binding]; other site 1280938016334 Q-loop/lid; other site 1280938016335 ABC transporter signature motif; other site 1280938016336 Walker B; other site 1280938016337 D-loop; other site 1280938016338 H-loop/switch region; other site 1280938016339 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 1280938016340 dimer interface [polypeptide binding]; other site 1280938016341 conserved gate region; other site 1280938016342 putative PBP binding loops; other site 1280938016343 ABC-ATPase subunit interface; other site 1280938016344 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938016345 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 1280938016346 substrate binding pocket [chemical binding]; other site 1280938016347 membrane-bound complex binding site; other site 1280938016348 hinge residues; other site 1280938016349 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1280938016350 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1280938016351 Ligand binding site; other site 1280938016352 DXD motif; other site 1280938016353 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1280938016354 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 1280938016355 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 1280938016356 putative active site [active] 1280938016357 dimerization interface [polypeptide binding]; other site 1280938016358 putative tRNAtyr binding site [nucleotide binding]; other site 1280938016359 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1280938016360 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1280938016361 TAP-like protein; Region: Abhydrolase_4; pfam08386 1280938016362 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1280938016363 nudix motif; other site 1280938016364 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938016365 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 1280938016366 substrate binding pocket [chemical binding]; other site 1280938016367 membrane-bound complex binding site; other site 1280938016368 hinge residues; other site 1280938016369 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 1280938016370 homotrimer interaction site [polypeptide binding]; other site 1280938016371 putative active site [active] 1280938016372 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1280938016373 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1280938016374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938016375 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 1280938016376 dimerization interface [polypeptide binding]; other site 1280938016377 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938016378 Sel1-like repeats; Region: SEL1; smart00671 1280938016379 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938016380 Sel1 repeat; Region: Sel1; cl02723 1280938016381 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1280938016382 Sel1 repeat; Region: Sel1; cl02723 1280938016383 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1280938016384 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1280938016385 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1280938016386 putative active site [active] 1280938016387 catalytic site [active] 1280938016388 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1280938016389 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1280938016390 putative active site [active] 1280938016391 catalytic site [active] 1280938016392 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938016393 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938016394 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938016395 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1280938016396 imidazolonepropionase; Validated; Region: PRK09356 1280938016397 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 1280938016398 active site 1280938016399 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1280938016400 active sites [active] 1280938016401 tetramer interface [polypeptide binding]; other site 1280938016402 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1280938016403 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1280938016404 Walker A/P-loop; other site 1280938016405 ATP binding site [chemical binding]; other site 1280938016406 Q-loop/lid; other site 1280938016407 ABC transporter signature motif; other site 1280938016408 Walker B; other site 1280938016409 D-loop; other site 1280938016410 H-loop/switch region; other site 1280938016411 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 1280938016412 dimer interface [polypeptide binding]; other site 1280938016413 conserved gate region; other site 1280938016414 putative PBP binding loops; other site 1280938016415 ABC-ATPase subunit interface; other site 1280938016416 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1280938016417 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1280938016418 putative proline-specific permease; Provisional; Region: proY; PRK10580 1280938016419 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1280938016420 active sites [active] 1280938016421 tetramer interface [polypeptide binding]; other site 1280938016422 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1280938016423 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1280938016424 Na binding site [ion binding]; other site 1280938016425 urocanate hydratase; Provisional; Region: PRK05414 1280938016426 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1280938016427 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1280938016428 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 1280938016429 putative di-iron ligands [ion binding]; other site 1280938016430 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1280938016431 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1280938016432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1280938016433 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1280938016434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938016435 DNA-binding site [nucleotide binding]; DNA binding site 1280938016436 UTRA domain; Region: UTRA; pfam07702 1280938016437 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1280938016438 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 1280938016439 active site 1280938016440 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1280938016441 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1280938016442 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1280938016443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1280938016444 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1280938016445 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 1280938016446 AMP binding site [chemical binding]; other site 1280938016447 metal binding site [ion binding]; metal-binding site 1280938016448 active site 1280938016449 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1280938016450 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1280938016451 dimer interface [polypeptide binding]; other site 1280938016452 active site 1280938016453 metal binding site [ion binding]; metal-binding site 1280938016454 glutathione binding site [chemical binding]; other site 1280938016455 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1280938016456 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 1280938016457 active site 1280938016458 catalytic triad [active] 1280938016459 oxyanion hole [active] 1280938016460 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1280938016461 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1280938016462 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1280938016463 Predicted membrane protein [Function unknown]; Region: COG5373 1280938016464 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 1280938016465 S-adenosylmethionine binding site [chemical binding]; other site 1280938016466 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1280938016467 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1280938016468 DNA binding residues [nucleotide binding] 1280938016469 putative dimer interface [polypeptide binding]; other site 1280938016470 putative metal binding residues [ion binding]; other site 1280938016471 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1280938016472 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1280938016473 G1 box; other site 1280938016474 putative GEF interaction site [polypeptide binding]; other site 1280938016475 GTP/Mg2+ binding site [chemical binding]; other site 1280938016476 Switch I region; other site 1280938016477 G2 box; other site 1280938016478 G3 box; other site 1280938016479 Switch II region; other site 1280938016480 G4 box; other site 1280938016481 G5 box; other site 1280938016482 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 1280938016483 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 1280938016484 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1280938016485 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1280938016486 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 1280938016487 Ligand Binding Site [chemical binding]; other site 1280938016488 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 1280938016489 glutamine synthetase; Provisional; Region: glnA; PRK09469 1280938016490 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1280938016491 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938016492 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1280938016493 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938016494 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1280938016495 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1280938016496 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1280938016497 PAS domain; Region: PAS; smart00091 1280938016498 putative active site [active] 1280938016499 heme pocket [chemical binding]; other site 1280938016500 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 1280938016501 dimer interface [polypeptide binding]; other site 1280938016502 phosphorylation site [posttranslational modification] 1280938016503 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 1280938016504 ATP binding site [chemical binding]; other site 1280938016505 Mg2+ binding site [ion binding]; other site 1280938016506 G-X-G motif; other site 1280938016507 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1280938016508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938016509 active site 1280938016510 phosphorylation site [posttranslational modification] 1280938016511 intermolecular recognition site; other site 1280938016512 dimerization interface [polypeptide binding]; other site 1280938016513 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 1280938016514 Walker A motif; other site 1280938016515 ATP binding site [chemical binding]; other site 1280938016516 Walker B motif; other site 1280938016517 arginine finger; other site 1280938016518 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938016519 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1280938016520 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 1280938016521 SecA binding site; other site 1280938016522 Preprotein binding site; other site 1280938016523 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 1280938016524 GSH binding site [chemical binding]; other site 1280938016525 catalytic residues [active] 1280938016526 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 1280938016527 active site residue [active] 1280938016528 phosphoglyceromutase; Provisional; Region: PRK05434 1280938016529 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1280938016530 CAAX protease self-immunity; Region: Abi; pfam02517 1280938016531 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1280938016532 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938016533 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1280938016534 C-terminal peptidase (prc); Region: prc; TIGR00225 1280938016535 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 1280938016536 protein binding site [polypeptide binding]; other site 1280938016537 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1280938016538 Catalytic dyad [active] 1280938016539 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1280938016540 NodB motif; other site 1280938016541 putative active site [active] 1280938016542 putative catalytic site [active] 1280938016543 Zn binding site [ion binding]; other site 1280938016544 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1280938016545 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 1280938016546 substrate binding pocket [chemical binding]; other site 1280938016547 membrane-bound complex binding site; other site 1280938016548 hinge residues; other site 1280938016549 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 1280938016550 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938016551 substrate binding pocket [chemical binding]; other site 1280938016552 membrane-bound complex binding site; other site 1280938016553 hinge residues; other site 1280938016554 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 1280938016555 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938016556 substrate binding pocket [chemical binding]; other site 1280938016557 membrane-bound complex binding site; other site 1280938016558 hinge residues; other site 1280938016559 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 1280938016560 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1280938016561 substrate binding site [chemical binding]; other site 1280938016562 glutamase interaction surface [polypeptide binding]; other site 1280938016563 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 1280938016564 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1280938016565 catalytic residues [active] 1280938016566 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1280938016567 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1280938016568 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1280938016569 putative active site [active] 1280938016570 oxyanion strand; other site 1280938016571 catalytic triad [active] 1280938016572 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1280938016573 putative active site pocket [active] 1280938016574 4-fold oligomerization interface [polypeptide binding]; other site 1280938016575 metal binding residues [ion binding]; metal-binding site 1280938016576 3-fold/trimer interface [polypeptide binding]; other site 1280938016577 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1280938016578 Sec63 Brl domain; Region: Sec63; pfam02889 1280938016579 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1280938016580 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1280938016581 AsmA family; Region: AsmA; pfam05170 1280938016582 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1280938016583 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1280938016584 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1280938016585 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1280938016586 minor groove reading motif; other site 1280938016587 helix-hairpin-helix signature motif; other site 1280938016588 substrate binding pocket [chemical binding]; other site 1280938016589 active site 1280938016590 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 1280938016591 DNA binding and oxoG recognition site [nucleotide binding] 1280938016592 oxidative damage protection protein; Provisional; Region: PRK05408 1280938016593 putative oxidoreductase; Provisional; Region: PRK11579 1280938016594 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1280938016595 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1280938016596 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938016597 classical (c) SDRs; Region: SDR_c; cd05233 1280938016598 NAD(P) binding site [chemical binding]; other site 1280938016599 active site 1280938016600 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1280938016601 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1280938016602 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1280938016603 Walker A/P-loop; other site 1280938016604 ATP binding site [chemical binding]; other site 1280938016605 Q-loop/lid; other site 1280938016606 ABC transporter signature motif; other site 1280938016607 Walker B; other site 1280938016608 D-loop; other site 1280938016609 H-loop/switch region; other site 1280938016610 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1280938016611 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 1280938016612 substrate binding pocket [chemical binding]; other site 1280938016613 membrane-bound complex binding site; other site 1280938016614 hinge residues; other site 1280938016615 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938016616 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 1280938016617 dimer interface [polypeptide binding]; other site 1280938016618 conserved gate region; other site 1280938016619 putative PBP binding loops; other site 1280938016620 ABC-ATPase subunit interface; other site 1280938016621 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1280938016622 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 1280938016623 dimer interface [polypeptide binding]; other site 1280938016624 conserved gate region; other site 1280938016625 putative PBP binding loops; other site 1280938016626 ABC-ATPase subunit interface; other site 1280938016627 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1280938016628 MarR family; Region: MarR_2; cl17246 1280938016629 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1280938016630 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1280938016631 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1280938016632 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1280938016633 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938016634 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1280938016635 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 1280938016636 putative substrate translocation pore; other site 1280938016637 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 1280938016638 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1280938016639 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1280938016640 NAD binding site [chemical binding]; other site 1280938016641 substrate binding site [chemical binding]; other site 1280938016642 homodimer interface [polypeptide binding]; other site 1280938016643 active site 1280938016644 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 1280938016645 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1280938016646 NADP binding site [chemical binding]; other site 1280938016647 active site 1280938016648 putative substrate binding site [chemical binding]; other site 1280938016649 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1280938016650 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1280938016651 substrate binding site; other site 1280938016652 tetramer interface; other site 1280938016653 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1280938016654 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1280938016655 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 1280938016656 dimer interface [polypeptide binding]; other site 1280938016657 phosphorylation site [posttranslational modification] 1280938016658 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 1280938016659 ATP binding site [chemical binding]; other site 1280938016660 Mg2+ binding site [ion binding]; other site 1280938016661 G-X-G motif; other site 1280938016662 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938016663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938016664 active site 1280938016665 phosphorylation site [posttranslational modification] 1280938016666 intermolecular recognition site; other site 1280938016667 dimerization interface [polypeptide binding]; other site 1280938016668 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 1280938016669 Walker A motif; other site 1280938016670 ATP binding site [chemical binding]; other site 1280938016671 Walker B motif; other site 1280938016672 arginine finger; other site 1280938016673 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938016674 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1280938016675 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1280938016676 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1280938016677 DctM-like transporters; Region: DctM; pfam06808 1280938016678 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1280938016679 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1280938016680 arginine deiminase; Provisional; Region: PRK01388 1280938016681 ornithine carbamoyltransferase; Validated; Region: PRK02102 1280938016682 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1280938016683 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1280938016684 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1280938016685 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 1280938016686 putative substrate binding site [chemical binding]; other site 1280938016687 nucleotide binding site [chemical binding]; other site 1280938016688 nucleotide binding site [chemical binding]; other site 1280938016689 homodimer interface [polypeptide binding]; other site 1280938016690 "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 1280938016691 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1280938016692 active site 1280938016693 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1280938016694 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 1280938016695 active site 1280938016696 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1280938016697 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 1280938016698 dimer interface [polypeptide binding]; other site 1280938016699 ADP-ribose binding site [chemical binding]; other site 1280938016700 active site 1280938016701 nudix motif; other site 1280938016702 metal binding site [ion binding]; metal-binding site 1280938016703 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1280938016704 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 1280938016705 motif II; other site 1280938016706 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1280938016707 BON domain; Region: BON; pfam04972 1280938016708 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1280938016709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938016710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938016711 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 1280938016712 dimerization interface [polypeptide binding]; other site 1280938016713 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 1280938016714 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1280938016715 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 1280938016716 putative molybdopterin cofactor binding site [chemical binding]; other site 1280938016717 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 1280938016718 putative molybdopterin cofactor binding site; other site 1280938016719 Global regulator protein family; Region: CsrA; pfam02599 1280938016720 chorismate mutase; Provisional; Region: PRK09269 1280938016721 chorismate mutase, putative; Region: CM_mono2; TIGR01806 1280938016722 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 1280938016723 active site 1280938016724 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1280938016725 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1280938016726 active site 1280938016727 NAD binding site [chemical binding]; other site 1280938016728 metal binding site [ion binding]; metal-binding site 1280938016729 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1280938016730 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1280938016731 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1280938016732 active site 1280938016733 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1280938016734 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1280938016735 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1280938016736 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938016737 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938016738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1280938016739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938016740 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 1280938016741 dimerization interface [polypeptide binding]; other site 1280938016742 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1280938016743 dimer interface [polypeptide binding]; other site 1280938016744 FMN binding site [chemical binding]; other site 1280938016745 Fimbrial protein; Region: Fimbrial; cl01416 1280938016746 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1280938016747 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 1280938016748 active site 1280938016749 substrate-binding site [chemical binding]; other site 1280938016750 metal-binding site [ion binding] 1280938016751 ATP binding site [chemical binding]; other site 1280938016752 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1280938016753 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 1280938016754 dimerization interface [polypeptide binding]; other site 1280938016755 domain crossover interface; other site 1280938016756 redox-dependent activation switch; other site 1280938016757 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1280938016758 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 1280938016759 active site 1280938016760 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 1280938016761 RNA binding surface [nucleotide binding]; other site 1280938016762 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1280938016763 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1280938016764 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1280938016765 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1280938016766 dimer interface [polypeptide binding]; other site 1280938016767 catalytic triad [active] 1280938016768 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1280938016769 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 1280938016770 dimerization interface [polypeptide binding]; other site 1280938016771 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 1280938016772 ATP binding site [chemical binding]; other site 1280938016773 Mg2+ binding site [ion binding]; other site 1280938016774 G-X-G motif; other site 1280938016775 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1280938016776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938016777 active site 1280938016778 phosphorylation site [posttranslational modification] 1280938016779 intermolecular recognition site; other site 1280938016780 dimerization interface [polypeptide binding]; other site 1280938016781 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 1280938016782 DNA binding site [nucleotide binding] 1280938016783 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1280938016784 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1280938016785 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1280938016786 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 1280938016787 RNA binding site [nucleotide binding]; other site 1280938016788 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 1280938016789 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1280938016790 CoenzymeA binding site [chemical binding]; other site 1280938016791 subunit interaction site [polypeptide binding]; other site 1280938016792 PHB binding site; other site 1280938016793 glutamate--cysteine ligase; Provisional; Region: PRK02107 1280938016794 N-acetylglutamate synthase; Validated; Region: PRK05279 1280938016795 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 1280938016796 putative feedback inhibition sensing region; other site 1280938016797 putative nucleotide binding site [chemical binding]; other site 1280938016798 putative substrate binding site [chemical binding]; other site 1280938016799 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1280938016800 Coenzyme A binding pocket [chemical binding]; other site 1280938016801 inner membrane protein; Provisional; Region: PRK10995 1280938016802 acetylornithine deacetylase; Provisional; Region: PRK05111 1280938016803 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1280938016804 metal binding site [ion binding]; metal-binding site 1280938016805 putative dimer interface [polypeptide binding]; other site 1280938016806 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1280938016807 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1280938016808 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1280938016809 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1280938016810 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1280938016811 putative active site [active] 1280938016812 putative metal binding residues [ion binding]; other site 1280938016813 signature motif; other site 1280938016814 putative triphosphate binding site [ion binding]; other site 1280938016815 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1280938016816 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1280938016817 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 1280938016818 Walker A motif; other site 1280938016819 ATP binding site [chemical binding]; other site 1280938016820 Walker B motif; other site 1280938016821 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1280938016822 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1280938016823 glycine dehydrogenase; Provisional; Region: PRK12566 1280938016824 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 1280938016825 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1280938016826 catalytic residue [active] 1280938016827 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 1280938016828 tetramer interface [polypeptide binding]; other site 1280938016829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938016830 catalytic residue [active] 1280938016831 glycine cleavage system protein H; Provisional; Region: PRK13380 1280938016832 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 1280938016833 lipoyl attachment site [posttranslational modification]; other site 1280938016834 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1280938016835 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1280938016836 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1280938016837 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 1280938016838 dimer interface [polypeptide binding]; other site 1280938016839 conserved gate region; other site 1280938016840 putative PBP binding loops; other site 1280938016841 ABC-ATPase subunit interface; other site 1280938016842 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1280938016843 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1280938016844 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1280938016845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938016846 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1280938016847 dimerization interface [polypeptide binding]; other site 1280938016848 substrate binding pocket [chemical binding]; other site 1280938016849 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 1280938016850 putative substrate translocation pore; other site 1280938016851 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938016852 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1280938016853 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1280938016854 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 1280938016855 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1280938016856 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1280938016857 proline aminopeptidase P II; Provisional; Region: PRK10879 1280938016858 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1280938016859 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 1280938016860 active site 1280938016861 hypothetical protein; Reviewed; Region: PRK02166 1280938016862 TIGR02449 family protein; Region: TIGR02449 1280938016863 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1280938016864 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1280938016865 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1280938016866 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1280938016867 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1280938016868 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1280938016869 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1280938016870 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1280938016871 Walker A/P-loop; other site 1280938016872 ATP binding site [chemical binding]; other site 1280938016873 Q-loop/lid; other site 1280938016874 ABC transporter signature motif; other site 1280938016875 Walker B; other site 1280938016876 D-loop; other site 1280938016877 H-loop/switch region; other site 1280938016878 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1280938016879 Walker A/P-loop; other site 1280938016880 ATP binding site [chemical binding]; other site 1280938016881 Q-loop/lid; other site 1280938016882 ABC transporter signature motif; other site 1280938016883 Walker B; other site 1280938016884 D-loop; other site 1280938016885 H-loop/switch region; other site 1280938016886 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1280938016887 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1280938016888 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1280938016889 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 1280938016890 HlyD family secretion protein; Region: HlyD_3; pfam13437 1280938016891 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1280938016892 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1280938016893 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1280938016894 NAD(P) binding site [chemical binding]; other site 1280938016895 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1280938016896 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 1280938016897 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 1280938016898 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1280938016899 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 1280938016900 catalytic loop [active] 1280938016901 iron binding site [ion binding]; other site 1280938016902 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 1280938016903 FAD binding pocket [chemical binding]; other site 1280938016904 FAD binding motif [chemical binding]; other site 1280938016905 phosphate binding motif [ion binding]; other site 1280938016906 beta-alpha-beta structure motif; other site 1280938016907 NAD binding pocket [chemical binding]; other site 1280938016908 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1280938016909 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1280938016910 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1280938016911 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1280938016912 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 1280938016913 RNA binding site [nucleotide binding]; other site 1280938016914 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 1280938016915 multimer interface [polypeptide binding]; other site 1280938016916 Walker A motif; other site 1280938016917 ATP binding site [chemical binding]; other site 1280938016918 Walker B motif; other site 1280938016919 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 1280938016920 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1280938016921 catalytic residues [active] 1280938016922 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1280938016923 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1280938016924 polyphosphate kinase; Provisional; Region: PRK05443 1280938016925 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1280938016926 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1280938016927 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1280938016928 putative domain interface [polypeptide binding]; other site 1280938016929 putative active site [active] 1280938016930 catalytic site [active] 1280938016931 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1280938016932 putative domain interface [polypeptide binding]; other site 1280938016933 putative active site [active] 1280938016934 catalytic site [active] 1280938016935 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 1280938016936 dimer interface [polypeptide binding]; other site 1280938016937 active site 1280938016938 aspartate-rich active site metal binding site; other site 1280938016939 allosteric magnesium binding site [ion binding]; other site 1280938016940 Schiff base residues; other site 1280938016941 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1280938016942 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1280938016943 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1280938016944 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1280938016945 conserved cys residue [active] 1280938016946 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 1280938016947 CoenzymeA binding site [chemical binding]; other site 1280938016948 subunit interaction site [polypeptide binding]; other site 1280938016949 PHB binding site; other site 1280938016950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1280938016951 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1280938016952 Cytochrome c; Region: Cytochrom_C; pfam00034 1280938016953 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1280938016954 LysE type translocator; Region: LysE; cl00565 1280938016955 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1280938016956 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1280938016957 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1280938016958 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1280938016959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938016960 Walker A/P-loop; other site 1280938016961 ATP binding site [chemical binding]; other site 1280938016962 Q-loop/lid; other site 1280938016963 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938016964 ABC transporter; Region: ABC_tran_2; pfam12848 1280938016965 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1280938016966 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1280938016967 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1280938016968 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1280938016969 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1280938016970 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1280938016971 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1280938016972 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1280938016973 HemY protein N-terminus; Region: HemY_N; pfam07219 1280938016974 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 1280938016975 binding surface 1280938016976 TPR motif; other site 1280938016977 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1280938016978 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1280938016979 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 1280938016980 active site 1280938016981 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1280938016982 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 1280938016983 domain interfaces; other site 1280938016984 active site 1280938016985 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1280938016986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938016987 active site 1280938016988 phosphorylation site [posttranslational modification] 1280938016989 intermolecular recognition site; other site 1280938016990 dimerization interface [polypeptide binding]; other site 1280938016991 LytTr DNA-binding domain; Region: LytTR; pfam04397 1280938016992 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1280938016993 Histidine kinase; Region: His_kinase; pfam06580 1280938016994 argininosuccinate lyase; Provisional; Region: PRK00855 1280938016995 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1280938016996 active sites [active] 1280938016997 tetramer interface [polypeptide binding]; other site 1280938016998 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1280938016999 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1280938017000 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1280938017001 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1280938017002 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1280938017003 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1280938017004 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1280938017005 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1280938017006 Cl binding site [ion binding]; other site 1280938017007 oligomer interface [polypeptide binding]; other site 1280938017008 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1280938017009 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 1280938017010 substrate binding pocket [chemical binding]; other site 1280938017011 membrane-bound complex binding site; other site 1280938017012 hinge residues; other site 1280938017013 TIGR02647 family protein; Region: DNA 1280938017014 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 1280938017015 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1280938017016 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1280938017017 Uncharacterized conserved protein [Function unknown]; Region: COG4278 1280938017018 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1280938017019 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1280938017020 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1280938017021 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 1280938017022 putative iron binding site [ion binding]; other site 1280938017023 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1280938017024 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1280938017025 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1280938017026 active site 1280938017027 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1280938017028 substrate binding site [chemical binding]; other site 1280938017029 catalytic residues [active] 1280938017030 dimer interface [polypeptide binding]; other site 1280938017031 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1280938017032 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1280938017033 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1280938017034 Protein of unknown function, DUF484; Region: DUF484; pfam04340 1280938017035 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1280938017036 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 1280938017037 active site 1280938017038 DNA binding site [nucleotide binding] 1280938017039 Int/Topo IB signature motif; other site 1280938017040 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1280938017041 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 1280938017042 motif II; other site 1280938017043 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 1280938017044 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938017045 DNA-binding site [nucleotide binding]; DNA binding site 1280938017046 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 1280938017047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938017048 homodimer interface [polypeptide binding]; other site 1280938017049 catalytic residue [active] 1280938017050 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1280938017051 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1280938017052 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1280938017053 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1280938017054 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1280938017055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1280938017056 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1280938017057 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1280938017058 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1280938017059 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1280938017060 BCCT family transporter; Region: BCCT; cl00569 1280938017061 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1280938017062 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1280938017063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938017064 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 1280938017065 dimerization interface [polypeptide binding]; other site 1280938017066 substrate binding pocket [chemical binding]; other site 1280938017067 multidrug efflux protein NorA; Provisional; Region: PRK00187 1280938017068 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1280938017069 cation binding site [ion binding]; other site 1280938017070 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938017071 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938017072 metal binding site [ion binding]; metal-binding site 1280938017073 active site 1280938017074 I-site; other site 1280938017075 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 1280938017076 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1280938017077 Part of AAA domain; Region: AAA_19; pfam13245 1280938017078 Family description; Region: UvrD_C_2; pfam13538 1280938017079 pyruvate dehydrogenase; Provisional; Region: PRK09124 1280938017080 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1280938017081 PYR/PP interface [polypeptide binding]; other site 1280938017082 dimer interface [polypeptide binding]; other site 1280938017083 tetramer interface [polypeptide binding]; other site 1280938017084 TPP binding site [chemical binding]; other site 1280938017085 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1280938017086 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 1280938017087 TPP-binding site [chemical binding]; other site 1280938017088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938017089 active site 1280938017090 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1280938017091 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1280938017092 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1280938017093 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1280938017094 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 1280938017095 non-specific DNA binding site [nucleotide binding]; other site 1280938017096 salt bridge; other site 1280938017097 sequence-specific DNA binding site [nucleotide binding]; other site 1280938017098 Cupin domain; Region: Cupin_2; pfam07883 1280938017099 alanine racemase; Reviewed; Region: dadX; PRK03646 1280938017100 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1280938017101 active site 1280938017102 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1280938017103 substrate binding site [chemical binding]; other site 1280938017104 catalytic residues [active] 1280938017105 dimer interface [polypeptide binding]; other site 1280938017106 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 1280938017107 homotrimer interaction site [polypeptide binding]; other site 1280938017108 putative active site [active] 1280938017109 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1280938017110 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1280938017111 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1280938017112 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 1280938017113 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1280938017114 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1280938017115 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1280938017116 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 1280938017117 putative DNA binding site [nucleotide binding]; other site 1280938017118 putative Zn2+ binding site [ion binding]; other site 1280938017119 AsnC family; Region: AsnC_trans_reg; pfam01037 1280938017120 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938017121 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1280938017122 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1280938017123 PLD-like domain; Region: PLDc_2; pfam13091 1280938017124 putative active site [active] 1280938017125 catalytic site [active] 1280938017126 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1280938017127 PLD-like domain; Region: PLDc_2; pfam13091 1280938017128 putative active site [active] 1280938017129 catalytic site [active] 1280938017130 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 1280938017131 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1280938017132 putative substrate translocation pore; other site 1280938017133 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1280938017134 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1280938017135 NAD(P) binding site [chemical binding]; other site 1280938017136 catalytic residues [active] 1280938017137 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1280938017138 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 1280938017139 inhibitor-cofactor binding pocket; inhibition site 1280938017140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938017141 catalytic residue [active] 1280938017142 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1280938017143 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1280938017144 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1280938017145 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1280938017146 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1280938017147 peptide binding site [polypeptide binding]; other site 1280938017148 hypothetical protein; Reviewed; Region: PRK00024 1280938017149 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1280938017150 MPN+ (JAMM) motif; other site 1280938017151 Zinc-binding site [ion binding]; other site 1280938017152 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1280938017153 Flavoprotein; Region: Flavoprotein; pfam02441 1280938017154 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1280938017155 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1280938017156 trimer interface [polypeptide binding]; other site 1280938017157 active site 1280938017158 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1280938017159 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 1280938017160 active site 1280938017161 substrate binding site [chemical binding]; other site 1280938017162 metal binding site [ion binding]; metal-binding site 1280938017163 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 1280938017164 feedback inhibition sensing region; other site 1280938017165 homohexameric interface [polypeptide binding]; other site 1280938017166 nucleotide binding site [chemical binding]; other site 1280938017167 N-acetyl-L-glutamate binding site [chemical binding]; other site 1280938017168 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1280938017169 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1280938017170 SurA N-terminal domain; Region: SurA_N; pfam09312 1280938017171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938017172 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1280938017173 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1280938017174 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 1280938017175 dimer interface [polypeptide binding]; other site 1280938017176 active site 1280938017177 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1280938017178 substrate binding site [chemical binding]; other site 1280938017179 catalytic residue [active] 1280938017180 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1280938017181 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938017182 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1280938017183 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1280938017184 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 1280938017185 active site 1280938017186 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1280938017187 active site 1280938017188 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1280938017189 putative active site [active] 1280938017190 putative catalytic site [active] 1280938017191 putative DNA binding site [nucleotide binding]; other site 1280938017192 putative phosphate binding site [ion binding]; other site 1280938017193 metal binding site A [ion binding]; metal-binding site 1280938017194 putative AP binding site [nucleotide binding]; other site 1280938017195 putative metal binding site B [ion binding]; other site 1280938017196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 1280938017197 ribonuclease PH; Reviewed; Region: rph; PRK00173 1280938017198 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1280938017199 hexamer interface [polypeptide binding]; other site 1280938017200 active site 1280938017201 hypothetical protein; Provisional; Region: PRK11820 1280938017202 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1280938017203 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1280938017204 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1280938017205 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 1280938017206 catalytic site [active] 1280938017207 G-X2-G-X-G-K; other site 1280938017208 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1280938017209 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1280938017210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1280938017211 Zn2+ binding site [ion binding]; other site 1280938017212 Mg2+ binding site [ion binding]; other site 1280938017213 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1280938017214 synthetase active site [active] 1280938017215 NTP binding site [chemical binding]; other site 1280938017216 metal binding site [ion binding]; metal-binding site 1280938017217 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 1280938017218 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1280938017219 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 1280938017220 homotrimer interaction site [polypeptide binding]; other site 1280938017221 putative active site [active] 1280938017222 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1280938017223 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1280938017224 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1280938017225 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938017226 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1280938017227 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1280938017228 putative NAD(P) binding site [chemical binding]; other site 1280938017229 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1280938017230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938017231 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 1280938017232 dimerization interface [polypeptide binding]; other site 1280938017233 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1280938017234 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 1280938017235 ssDNA binding site; other site 1280938017236 generic binding surface II; other site 1280938017237 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 1280938017238 ATP binding site [chemical binding]; other site 1280938017239 putative Mg++ binding site [ion binding]; other site 1280938017240 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 1280938017241 nucleotide binding region [chemical binding]; other site 1280938017242 ATP-binding site [chemical binding]; other site 1280938017243 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 1280938017244 putative deacylase active site [active] 1280938017245 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1280938017246 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 1280938017247 IHF dimer interface [polypeptide binding]; other site 1280938017248 IHF - DNA interface [nucleotide binding]; other site 1280938017249 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1280938017250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1280938017251 Rubredoxin [Energy production and conversion]; Region: COG1773 1280938017252 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 1280938017253 iron binding site [ion binding]; other site 1280938017254 Rubredoxin [Energy production and conversion]; Region: COG1773 1280938017255 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 1280938017256 iron binding site [ion binding]; other site 1280938017257 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1280938017258 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1280938017259 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 1280938017260 Cysteine-rich domain; Region: CCG; pfam02754 1280938017261 Cysteine-rich domain; Region: CCG; pfam02754 1280938017262 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938017263 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1280938017264 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1280938017265 FAD binding domain; Region: FAD_binding_4; pfam01565 1280938017266 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1280938017267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938017268 DNA-binding site [nucleotide binding]; DNA binding site 1280938017269 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1280938017270 Chorismate lyase; Region: Chor_lyase; pfam04345 1280938017271 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1280938017272 UbiA prenyltransferase family; Region: UbiA; pfam01040 1280938017273 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1280938017274 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1280938017275 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1280938017276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938017277 active site 1280938017278 phosphorylation site [posttranslational modification] 1280938017279 intermolecular recognition site; other site 1280938017280 dimerization interface [polypeptide binding]; other site 1280938017281 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 1280938017282 DNA binding site [nucleotide binding] 1280938017283 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1280938017284 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1280938017285 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 1280938017286 putative active site [active] 1280938017287 heme pocket [chemical binding]; other site 1280938017288 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 1280938017289 dimer interface [polypeptide binding]; other site 1280938017290 phosphorylation site [posttranslational modification] 1280938017291 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 1280938017292 ATP binding site [chemical binding]; other site 1280938017293 Mg2+ binding site [ion binding]; other site 1280938017294 G-X-G motif; other site 1280938017295 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1280938017296 Domain of unknown function DUF21; Region: DUF21; pfam01595 1280938017297 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 1280938017298 Transporter associated domain; Region: CorC_HlyC; smart01091 1280938017299 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1280938017300 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1280938017301 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938017302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938017303 Response regulator receiver domain; Region: Response_reg; pfam00072 1280938017304 active site 1280938017305 phosphorylation site [posttranslational modification] 1280938017306 intermolecular recognition site; other site 1280938017307 dimerization interface [polypeptide binding]; other site 1280938017308 transcriptional regulator PhoU; Provisional; Region: PRK11115 1280938017309 PhoU domain; Region: PhoU; pfam01895 1280938017310 PhoU domain; Region: PhoU; pfam01895 1280938017311 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1280938017312 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1280938017313 Walker A/P-loop; other site 1280938017314 ATP binding site [chemical binding]; other site 1280938017315 Q-loop/lid; other site 1280938017316 ABC transporter signature motif; other site 1280938017317 Walker B; other site 1280938017318 D-loop; other site 1280938017319 H-loop/switch region; other site 1280938017320 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1280938017321 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1280938017322 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 1280938017323 dimer interface [polypeptide binding]; other site 1280938017324 conserved gate region; other site 1280938017325 putative PBP binding loops; other site 1280938017326 ABC-ATPase subunit interface; other site 1280938017327 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1280938017328 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 1280938017329 ABC-ATPase subunit interface; other site 1280938017330 PBP superfamily domain; Region: PBP_like_2; cl17296 1280938017331 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 1280938017332 metabolite-proton symporter; Region: 2A0106; TIGR00883 1280938017333 putative substrate translocation pore; other site 1280938017334 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 1280938017335 choline dehydrogenase; Validated; Region: PRK02106 1280938017336 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1280938017337 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1280938017338 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1280938017339 tetrameric interface [polypeptide binding]; other site 1280938017340 NAD binding site [chemical binding]; other site 1280938017341 catalytic residues [active] 1280938017342 transcriptional regulator BetI; Validated; Region: PRK00767 1280938017343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1280938017344 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1280938017345 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 1280938017346 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1280938017347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1280938017348 Walker A/P-loop; other site 1280938017349 ATP binding site [chemical binding]; other site 1280938017350 Q-loop/lid; other site 1280938017351 ABC transporter signature motif; other site 1280938017352 Walker B; other site 1280938017353 D-loop; other site 1280938017354 H-loop/switch region; other site 1280938017355 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 1280938017356 dimer interface [polypeptide binding]; other site 1280938017357 conserved gate region; other site 1280938017358 putative PBP binding loops; other site 1280938017359 ABC-ATPase subunit interface; other site 1280938017360 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1280938017361 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1280938017362 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1280938017363 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1280938017364 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1280938017365 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1280938017366 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1280938017367 conserved cys residue [active] 1280938017368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938017369 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1280938017370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938017371 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 1280938017372 putative dimerization interface [polypeptide binding]; other site 1280938017373 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 1280938017374 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1280938017375 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 1280938017376 active site 1280938017377 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1280938017378 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1280938017379 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1280938017380 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1280938017381 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1280938017382 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1280938017383 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1280938017384 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1280938017385 conserved cys residue [active] 1280938017386 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1280938017387 acetylornithine deacetylase; Provisional; Region: PRK07522 1280938017388 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1280938017389 metal binding site [ion binding]; metal-binding site 1280938017390 putative dimer interface [polypeptide binding]; other site 1280938017391 Uncharacterized conserved protein [Function unknown]; Region: COG3342 1280938017392 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1280938017393 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 1280938017394 homotrimer interaction site [polypeptide binding]; other site 1280938017395 putative active site [active] 1280938017396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938017397 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1280938017398 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1280938017399 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1280938017400 putative active site [active] 1280938017401 catalytic site [active] 1280938017402 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1280938017403 putative active site [active] 1280938017404 catalytic site [active] 1280938017405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1280938017406 SnoaL-like domain; Region: SnoaL_2; pfam12680 1280938017407 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1280938017408 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1280938017409 active site 1280938017410 V4R domain; Region: V4R; cl15268 1280938017411 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1280938017412 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 1280938017413 putative active site [active] 1280938017414 putative FMN binding site [chemical binding]; other site 1280938017415 putative substrate binding site [chemical binding]; other site 1280938017416 putative catalytic residue [active] 1280938017417 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1280938017418 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1280938017419 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1280938017420 Cysteine-rich domain; Region: CCG; pfam02754 1280938017421 Cysteine-rich domain; Region: CCG; pfam02754 1280938017422 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1280938017423 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1280938017424 Ligand Binding Site [chemical binding]; other site 1280938017425 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1280938017426 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 1280938017427 Ligand Binding Site [chemical binding]; other site 1280938017428 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1280938017429 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1280938017430 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 1280938017431 non-specific DNA binding site [nucleotide binding]; other site 1280938017432 salt bridge; other site 1280938017433 sequence-specific DNA binding site [nucleotide binding]; other site 1280938017434 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1280938017435 Cell division protein ZapA; Region: ZapA; pfam05164 1280938017436 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1280938017437 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1280938017438 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 1280938017439 [2Fe-2S] cluster binding site [ion binding]; other site 1280938017440 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 1280938017441 putative alpha subunit interface [polypeptide binding]; other site 1280938017442 putative active site [active] 1280938017443 putative substrate binding site [chemical binding]; other site 1280938017444 Fe binding site [ion binding]; other site 1280938017445 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1280938017446 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 1280938017447 FAD binding pocket [chemical binding]; other site 1280938017448 FAD binding motif [chemical binding]; other site 1280938017449 phosphate binding motif [ion binding]; other site 1280938017450 beta-alpha-beta structure motif; other site 1280938017451 NAD binding pocket [chemical binding]; other site 1280938017452 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 1280938017453 catalytic loop [active] 1280938017454 iron binding site [ion binding]; other site 1280938017455 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1280938017456 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 1280938017457 tetramer interface [polypeptide binding]; other site 1280938017458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938017459 catalytic residue [active] 1280938017460 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1280938017461 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 1280938017462 dimer interface [polypeptide binding]; other site 1280938017463 active site 1280938017464 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1280938017465 folate binding site [chemical binding]; other site 1280938017466 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1280938017467 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1280938017468 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1280938017469 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1280938017470 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1280938017471 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1280938017472 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1280938017473 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1280938017474 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1280938017475 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1280938017476 putative active site [active] 1280938017477 putative substrate binding site [chemical binding]; other site 1280938017478 putative cosubstrate binding site; other site 1280938017479 catalytic site [active] 1280938017480 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1280938017481 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1280938017482 NAD binding site [chemical binding]; other site 1280938017483 catalytic Zn binding site [ion binding]; other site 1280938017484 structural Zn binding site [ion binding]; other site 1280938017485 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1280938017486 active site 1280938017487 phosphate binding residues; other site 1280938017488 catalytic residues [active] 1280938017489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3495 1280938017490 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1280938017491 ATP-grasp domain; Region: ATP-grasp; pfam02222 1280938017492 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1280938017493 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1280938017494 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1280938017495 NAD binding site [chemical binding]; other site 1280938017496 substrate binding site [chemical binding]; other site 1280938017497 catalytic Zn binding site [ion binding]; other site 1280938017498 tetramer interface [polypeptide binding]; other site 1280938017499 structural Zn binding site [ion binding]; other site 1280938017500 cell density-dependent motility repressor; Provisional; Region: PRK10082 1280938017501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938017502 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 1280938017503 dimerization interface [polypeptide binding]; other site 1280938017504 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1280938017505 Aspartase; Region: Aspartase; cd01357 1280938017506 active sites [active] 1280938017507 tetramer interface [polypeptide binding]; other site 1280938017508 Sulphur transport; Region: Sulf_transp; pfam04143 1280938017509 Predicted transporter component [General function prediction only]; Region: COG2391 1280938017510 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 1280938017511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938017512 DNA-binding site [nucleotide binding]; DNA binding site 1280938017513 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 1280938017514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938017515 homodimer interface [polypeptide binding]; other site 1280938017516 catalytic residue [active] 1280938017517 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938017518 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1280938017519 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938017520 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1280938017521 aromatic amino acid transport protein; Region: araaP; TIGR00837 1280938017522 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1280938017523 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1280938017524 active site 1280938017525 catalytic residues [active] 1280938017526 metal binding site [ion binding]; metal-binding site 1280938017527 homodimer binding site [polypeptide binding]; other site 1280938017528 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 1280938017529 carboxyltransferase (CT) interaction site; other site 1280938017530 biotinylation site [posttranslational modification]; other site 1280938017531 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1280938017532 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1280938017533 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1280938017534 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1280938017535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1280938017536 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1280938017537 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 1280938017538 putative dimerization interface [polypeptide binding]; other site 1280938017539 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1280938017540 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1280938017541 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 1280938017542 putative active site [active] 1280938017543 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1280938017544 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1280938017545 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1280938017546 putative protease; Provisional; Region: PRK15452 1280938017547 Peptidase family U32; Region: Peptidase_U32; pfam01136 1280938017548 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 1280938017549 PAS fold; Region: PAS_3; pfam08447 1280938017550 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 1280938017551 heme pocket [chemical binding]; other site 1280938017552 putative active site [active] 1280938017553 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 1280938017554 PAS domain; Region: PAS_9; pfam13426 1280938017555 putative active site [active] 1280938017556 heme pocket [chemical binding]; other site 1280938017557 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938017558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938017559 metal binding site [ion binding]; metal-binding site 1280938017560 active site 1280938017561 I-site; other site 1280938017562 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 1280938017563 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1280938017564 Part of AAA domain; Region: AAA_19; pfam13245 1280938017565 Family description; Region: UvrD_C_2; pfam13538 1280938017566 Predicted membrane protein [Function unknown]; Region: COG2510 1280938017567 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1280938017568 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1280938017569 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1280938017570 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1280938017571 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938017572 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 1280938017573 putative ADP-binding pocket [chemical binding]; other site 1280938017574 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 1280938017575 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938017576 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 1280938017577 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938017578 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1280938017579 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1280938017580 Walker A/P-loop; other site 1280938017581 ATP binding site [chemical binding]; other site 1280938017582 Q-loop/lid; other site 1280938017583 ABC transporter signature motif; other site 1280938017584 Walker B; other site 1280938017585 D-loop; other site 1280938017586 H-loop/switch region; other site 1280938017587 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1280938017588 putative carbohydrate binding site [chemical binding]; other site 1280938017589 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1280938017590 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1280938017591 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1280938017592 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1280938017593 Substrate binding site; other site 1280938017594 Cupin domain; Region: Cupin_2; cl17218 1280938017595 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1280938017596 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1280938017597 NADP-binding site; other site 1280938017598 homotetramer interface [polypeptide binding]; other site 1280938017599 substrate binding site [chemical binding]; other site 1280938017600 homodimer interface [polypeptide binding]; other site 1280938017601 active site 1280938017602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938017603 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1280938017604 NAD(P) binding site [chemical binding]; other site 1280938017605 active site 1280938017606 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938017607 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 1280938017608 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 1280938017609 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1280938017610 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; cd01635 1280938017611 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1280938017612 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 1280938017613 S-adenosylmethionine binding site [chemical binding]; other site 1280938017614 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1280938017615 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1280938017616 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1280938017617 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1280938017618 conserverd hypothetical protein; Region: TIGR02448 1280938017619 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1280938017620 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1280938017621 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1280938017622 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1280938017623 Predicted permeases [General function prediction only]; Region: COG0679 1280938017624 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1280938017625 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1280938017626 Citrate transporter; Region: CitMHS; pfam03600 1280938017627 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1280938017628 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 1280938017629 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1280938017630 hypothetical protein; Reviewed; Region: PRK09588 1280938017631 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 1280938017632 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1280938017633 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1280938017634 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1280938017635 PhoU domain; Region: PhoU; pfam01895 1280938017636 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1280938017637 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1280938017638 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1280938017639 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1280938017640 citrate-proton symporter; Provisional; Region: PRK15075 1280938017641 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 1280938017642 putative substrate translocation pore; other site 1280938017643 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1280938017644 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1280938017645 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1280938017646 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1280938017647 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1280938017648 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1280938017649 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938017650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938017651 active site 1280938017652 phosphorylation site [posttranslational modification] 1280938017653 intermolecular recognition site; other site 1280938017654 dimerization interface [polypeptide binding]; other site 1280938017655 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 1280938017656 Walker A motif; other site 1280938017657 ATP binding site [chemical binding]; other site 1280938017658 Walker B motif; other site 1280938017659 arginine finger; other site 1280938017660 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938017661 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 1280938017662 dimerization interface [polypeptide binding]; other site 1280938017663 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1280938017664 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 1280938017665 putative active site [active] 1280938017666 heme pocket [chemical binding]; other site 1280938017667 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 1280938017668 dimer interface [polypeptide binding]; other site 1280938017669 phosphorylation site [posttranslational modification] 1280938017670 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 1280938017671 ATP binding site [chemical binding]; other site 1280938017672 Mg2+ binding site [ion binding]; other site 1280938017673 G-X-G motif; other site 1280938017674 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1280938017675 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1280938017676 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 1280938017677 amidase catalytic site [active] 1280938017678 Zn binding residues [ion binding]; other site 1280938017679 substrate binding site [chemical binding]; other site 1280938017680 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1280938017681 MarC family integral membrane protein; Region: MarC; cl00919 1280938017682 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1280938017683 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1280938017684 metal binding site [ion binding]; metal-binding site 1280938017685 active site 1280938017686 I-site; other site 1280938017687 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1280938017688 putative catalytic site [active] 1280938017689 putative metal binding site [ion binding]; other site 1280938017690 putative phosphate binding site [ion binding]; other site 1280938017691 putative catalytic site [active] 1280938017692 putative phosphate binding site [ion binding]; other site 1280938017693 putative metal binding site [ion binding]; other site 1280938017694 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 1280938017695 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1280938017696 catalytic residues [active] 1280938017697 hinge region; other site 1280938017698 alpha helical domain; other site 1280938017699 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1280938017700 Cytochrome c; Region: Cytochrom_C; cl11414 1280938017701 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1280938017702 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1280938017703 G1 box; other site 1280938017704 GTP/Mg2+ binding site [chemical binding]; other site 1280938017705 Switch I region; other site 1280938017706 G2 box; other site 1280938017707 G3 box; other site 1280938017708 Switch II region; other site 1280938017709 G4 box; other site 1280938017710 G5 box; other site 1280938017711 DNA polymerase I; Provisional; Region: PRK05755 1280938017712 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1280938017713 active site 1280938017714 metal binding site 1 [ion binding]; metal-binding site 1280938017715 putative 5' ssDNA interaction site; other site 1280938017716 metal binding site 3; metal-binding site 1280938017717 metal binding site 2 [ion binding]; metal-binding site 1280938017718 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1280938017719 putative DNA binding site [nucleotide binding]; other site 1280938017720 putative metal binding site [ion binding]; other site 1280938017721 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 1280938017722 active site 1280938017723 catalytic site [active] 1280938017724 substrate binding site [chemical binding]; other site 1280938017725 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1280938017726 active site 1280938017727 DNA binding site [nucleotide binding] 1280938017728 catalytic site [active] 1280938017729 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1280938017730 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1280938017731 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 1280938017732 putative active site [active] 1280938017733 putative substrate binding site [chemical binding]; other site 1280938017734 ATP binding site [chemical binding]; other site 1280938017735 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 1280938017736 TSCPD domain; Region: TSCPD; pfam12637 1280938017737 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1280938017738 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1280938017739 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1280938017740 active site 1280938017741 dimer interface [polypeptide binding]; other site 1280938017742 effector binding site; other site 1280938017743 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1280938017744 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1280938017745 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 1280938017746 metal binding site [ion binding]; metal-binding site 1280938017747 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1280938017748 Predicted transcriptional regulators [Transcription]; Region: COG1695 1280938017749 metal binding site 2 [ion binding]; metal-binding site 1280938017750 putative DNA binding helix; other site 1280938017751 metal binding site 1 [ion binding]; metal-binding site 1280938017752 dimer interface [polypeptide binding]; other site 1280938017753 structural Zn2+ binding site [ion binding]; other site 1280938017754 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1280938017755 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1280938017756 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1280938017757 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 1280938017758 dimer interface [polypeptide binding]; other site 1280938017759 putative PBP binding regions; other site 1280938017760 ABC-ATPase subunit interface; other site 1280938017761 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1280938017762 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1280938017763 Walker A/P-loop; other site 1280938017764 ATP binding site [chemical binding]; other site 1280938017765 Q-loop/lid; other site 1280938017766 ABC transporter signature motif; other site 1280938017767 Walker B; other site 1280938017768 D-loop; other site 1280938017769 H-loop/switch region; other site 1280938017770 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 1280938017771 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 1280938017772 dimer interface [polypeptide binding]; other site 1280938017773 conserved gate region; other site 1280938017774 ABC-ATPase subunit interface; other site 1280938017775 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1280938017776 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1280938017777 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1280938017778 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1280938017779 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 1280938017780 putative active site [active] 1280938017781 Isochorismatase family; Region: Isochorismatase; pfam00857 1280938017782 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 1280938017783 catalytic triad [active] 1280938017784 conserved cis-peptide bond; other site 1280938017785 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1280938017786 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938017787 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1280938017788 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1280938017789 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1280938017790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1280938017791 active site 1280938017792 phosphorylation site [posttranslational modification] 1280938017793 intermolecular recognition site; other site 1280938017794 dimerization interface [polypeptide binding]; other site 1280938017795 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 1280938017796 Walker A motif; other site 1280938017797 ATP binding site [chemical binding]; other site 1280938017798 Walker B motif; other site 1280938017799 arginine finger; other site 1280938017800 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1280938017801 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1280938017802 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 1280938017803 dimer interface [polypeptide binding]; other site 1280938017804 phosphorylation site [posttranslational modification] 1280938017805 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 1280938017806 ATP binding site [chemical binding]; other site 1280938017807 Mg2+ binding site [ion binding]; other site 1280938017808 G-X-G motif; other site 1280938017809 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1280938017810 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1280938017811 potential frameshift: common BLAST hit: gi|386069178|ref|YP_005984482.1| putative beta-lactamase 1280938017812 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1280938017813 pyridoxamine kinase; Validated; Region: PRK05756 1280938017814 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1280938017815 pyridoxal binding site [chemical binding]; other site 1280938017816 dimer interface [polypeptide binding]; other site 1280938017817 ATP binding site [chemical binding]; other site 1280938017818 Predicted membrane protein [Function unknown]; Region: COG1238 1280938017819 putative cation:proton antiport protein; Provisional; Region: PRK10669 1280938017820 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1280938017821 TrkA-N domain; Region: TrkA_N; pfam02254 1280938017822 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 1280938017823 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938017824 classical (c) SDRs; Region: SDR_c; cd05233 1280938017825 NAD(P) binding site [chemical binding]; other site 1280938017826 active site 1280938017827 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1280938017828 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1280938017829 aminotransferase; Validated; Region: PRK07046 1280938017830 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 1280938017831 inhibitor-cofactor binding pocket; inhibition site 1280938017832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1280938017833 catalytic residue [active] 1280938017834 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1280938017835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1280938017836 NAD(P) binding site [chemical binding]; other site 1280938017837 active site 1280938017838 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1280938017839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1280938017840 DNA-binding site [nucleotide binding]; DNA binding site 1280938017841 FCD domain; Region: FCD; pfam07729 1280938017842 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1280938017843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1280938017844 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1280938017845 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1280938017846 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1280938017847 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 1280938017848 putative substrate translocation pore; other site 1280938017849 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1280938017850 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1280938017851 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1280938017852 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1280938017853 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1280938017854 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1280938017855 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1280938017856 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1280938017857 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1280938017858 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1280938017859 AMIN domain; Region: AMIN; pfam11741 1280938017860 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1280938017861 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 1280938017862 active site 1280938017863 metal binding site [ion binding]; metal-binding site 1280938017864 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1280938017865 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1280938017866 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 1280938017867 trimer interface [polypeptide binding]; other site 1280938017868 active site 1280938017869 dihydroorotase; Reviewed; Region: PRK09236 1280938017870 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 1280938017871 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 1280938017872 active site 1280938017873 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1280938017874 Beta-lactamase; Region: Beta-lactamase; pfam00144 1280938017875 Uncharacterized conserved protein [Function unknown]; Region: COG4729 1280938017876 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1280938017877 DctM-like transporters; Region: DctM; pfam06808 1280938017878 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1280938017879 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 1280938017880 substrate binding pocket [chemical binding]; other site 1280938017881 membrane-bound complex binding site; other site 1280938017882 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1280938017883 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 1280938017884 S-adenosylmethionine binding site [chemical binding]; other site 1280938017885 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1280938017886 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 1280938017887 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1280938017888 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 1280938017889 putative substrate translocation pore; other site 1280938017890 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1280938017891 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 1280938017892 glutaminase active site [active] 1280938017893 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 1280938017894 dimer interface [polypeptide binding]; other site 1280938017895 active site 1280938017896 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 1280938017897 dimer interface [polypeptide binding]; other site 1280938017898 active site 1280938017899 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1280938017900 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1280938017901 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1280938017902 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1280938017903 Peptidase family M23; Region: Peptidase_M23; pfam01551 1280938017904 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 1280938017905 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1280938017906 Substrate binding site; other site 1280938017907 Mg++ binding site; other site 1280938017908 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 1280938017909 active site 1280938017910 substrate binding site [chemical binding]; other site 1280938017911 CoA binding site [chemical binding]; other site 1280938017912 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1280938017913 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1280938017914 gamma subunit interface [polypeptide binding]; other site 1280938017915 epsilon subunit interface [polypeptide binding]; other site 1280938017916 LBP interface [polypeptide binding]; other site 1280938017917 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1280938017918 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1280938017919 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 1280938017920 alpha subunit interaction interface [polypeptide binding]; other site 1280938017921 Walker A motif; other site 1280938017922 ATP binding site [chemical binding]; other site 1280938017923 Walker B motif; other site 1280938017924 inhibitor binding site; inhibition site 1280938017925 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1280938017926 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1280938017927 core domain interface [polypeptide binding]; other site 1280938017928 delta subunit interface [polypeptide binding]; other site 1280938017929 epsilon subunit interface [polypeptide binding]; other site 1280938017930 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1280938017931 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1280938017932 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 1280938017933 beta subunit interaction interface [polypeptide binding]; other site 1280938017934 Walker A motif; other site 1280938017935 ATP binding site [chemical binding]; other site 1280938017936 Walker B motif; other site 1280938017937 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1280938017938 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1280938017939 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1280938017940 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1280938017941 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1280938017942 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1280938017943 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1280938017944 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1280938017945 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 1280938017946 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1280938017947 ParB-like nuclease domain; Region: ParBc; pfam02195 1280938017948 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1280938017949 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 1280938017950 P-loop; other site 1280938017951 Magnesium ion binding site [ion binding]; other site 1280938017952 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 1280938017953 Magnesium ion binding site [ion binding]; other site 1280938017954 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1280938017955 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1280938017956 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1280938017957 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1280938017958 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1280938017959 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1280938017960 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1280938017961 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1280938017962 G1 box; other site 1280938017963 GTP/Mg2+ binding site [chemical binding]; other site 1280938017964 Switch I region; other site 1280938017965 G2 box; other site 1280938017966 Switch II region; other site 1280938017967 G3 box; other site 1280938017968 G4 box; other site 1280938017969 G5 box; other site 1280938017970 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1280938017971 membrane protein insertase; Provisional; Region: PRK01318 1280938017972 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1280938017973 ribonuclease P; Reviewed; Region: rnpA; PRK00396 1280938017974 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399