-- dump date 20140620_004632 -- class Genbank::misc_feature -- table misc_feature_note -- id note 208963000001 Source DNA and bacteria available from Fred Ausubel at ausubel@molbio.mgh.harvard.edu 208963000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 208963000003 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 208963000004 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 208963000005 Walker A motif; other site 208963000006 ATP binding site [chemical binding]; other site 208963000007 Walker B motif; other site 208963000008 arginine finger; other site 208963000009 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 208963000010 DnaA box-binding interface [nucleotide binding]; other site 208963000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 208963000012 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 208963000013 putative DNA binding surface [nucleotide binding]; other site 208963000014 dimer interface [polypeptide binding]; other site 208963000015 beta-clamp/clamp loader binding surface; other site 208963000016 beta-clamp/translesion DNA polymerase binding surface; other site 208963000017 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 208963000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963000019 Walker A/P-loop; other site 208963000020 ATP binding site [chemical binding]; other site 208963000021 Q-loop/lid; other site 208963000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963000023 ABC transporter signature motif; other site 208963000024 Walker B; other site 208963000025 D-loop; other site 208963000026 H-loop/switch region; other site 208963000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 208963000028 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963000029 Mg2+ binding site [ion binding]; other site 208963000030 G-X-G motif; other site 208963000031 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 208963000032 anchoring element; other site 208963000033 dimer interface [polypeptide binding]; other site 208963000034 ATP binding site [chemical binding]; other site 208963000035 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 208963000036 active site 208963000037 putative metal-binding site [ion binding]; other site 208963000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 208963000039 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 208963000040 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 208963000041 putative acyl-acceptor binding pocket; other site 208963000042 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 208963000043 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 208963000044 active site 208963000045 motif I; other site 208963000046 motif II; other site 208963000047 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 208963000048 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 208963000049 dimer interface [polypeptide binding]; other site 208963000050 motif 1; other site 208963000051 active site 208963000052 motif 2; other site 208963000053 motif 3; other site 208963000054 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 208963000055 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 208963000056 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 208963000057 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 208963000058 putative acyl-acceptor binding pocket; other site 208963000059 PilZ domain; Region: PilZ; pfam07238 208963000060 hypothetical protein; Provisional; Region: PRK11212 208963000061 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 208963000062 TPR motif; other site 208963000063 TPR repeat; Region: TPR_11; pfam13414 208963000064 binding surface 208963000065 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 208963000066 TrkA-N domain; Region: TrkA_N; pfam02254 208963000067 TrkA-C domain; Region: TrkA_C; pfam02080 208963000068 TrkA-N domain; Region: TrkA_N; pfam02254 208963000069 TrkA-C domain; Region: TrkA_C; pfam02080 208963000070 16S rRNA methyltransferase B; Provisional; Region: PRK10901 208963000071 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 208963000072 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 208963000073 S-adenosylmethionine binding site [chemical binding]; other site 208963000074 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 208963000075 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 208963000076 putative active site [active] 208963000077 substrate binding site [chemical binding]; other site 208963000078 putative cosubstrate binding site; other site 208963000079 catalytic site [active] 208963000080 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 208963000081 substrate binding site [chemical binding]; other site 208963000082 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 208963000083 active site 208963000084 catalytic residues [active] 208963000085 metal binding site [ion binding]; metal-binding site 208963000086 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 208963000087 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963000088 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 208963000089 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 208963000090 DNA protecting protein DprA; Region: dprA; TIGR00732 208963000091 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 208963000092 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 208963000093 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 208963000094 NADP binding site [chemical binding]; other site 208963000095 dimer interface [polypeptide binding]; other site 208963000096 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 208963000097 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 208963000098 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 208963000099 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 208963000100 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 208963000101 shikimate binding site; other site 208963000102 NAD(P) binding site [chemical binding]; other site 208963000103 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 208963000104 Zn binding site [ion binding]; other site 208963000105 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 208963000106 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 208963000107 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 208963000108 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 208963000109 Sulfate transporter family; Region: Sulfate_transp; pfam00916 208963000110 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 208963000111 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 208963000112 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 208963000113 choline-sulfatase; Region: chol_sulfatase; TIGR03417 208963000114 Sulfatase; Region: Sulfatase; cl17466 208963000115 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 208963000116 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 208963000117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000118 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 208963000119 dimerization interface [polypeptide binding]; other site 208963000120 substrate binding pocket [chemical binding]; other site 208963000121 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 208963000122 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 208963000123 putative binding surface; other site 208963000124 active site 208963000125 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963000126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963000127 active site 208963000128 phosphorylation site [posttranslational modification] 208963000129 intermolecular recognition site; other site 208963000130 dimerization interface [polypeptide binding]; other site 208963000131 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 208963000132 DNA binding residues [nucleotide binding] 208963000133 dimerization interface [polypeptide binding]; other site 208963000134 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 208963000135 substrate binding site [chemical binding]; other site 208963000136 active site 208963000137 catalytic residues [active] 208963000138 heterodimer interface [polypeptide binding]; other site 208963000139 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 208963000140 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 208963000141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963000142 catalytic residue [active] 208963000143 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963000144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000145 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 208963000146 dimerization interface [polypeptide binding]; other site 208963000147 Dodecin; Region: Dodecin; pfam07311 208963000148 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 208963000149 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 208963000150 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 208963000151 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 208963000152 haemagglutination activity domain; Region: Haemagg_act; pfam05860 208963000153 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 208963000154 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 208963000155 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 208963000156 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 208963000157 Predicted membrane protein [Function unknown]; Region: COG3174 208963000158 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 208963000159 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 208963000160 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 208963000161 switch II binding region; other site 208963000162 Rac1 P-loop interaction site [polypeptide binding]; other site 208963000163 GTP binding residues [chemical binding]; other site 208963000164 switch I binding region; other site 208963000165 ADP-ribosyltransferase exoenzyme; Region: ADPrib_exo_Tox; pfam03496 208963000166 active site 208963000167 conformational flexibility of ligand binding pocket; other site 208963000168 ADP-ribosylating toxin turn-turn motif; other site 208963000169 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 208963000170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 208963000171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 208963000172 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 208963000173 sequence-specific DNA binding site [nucleotide binding]; other site 208963000174 salt bridge; other site 208963000175 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 208963000176 active site 208963000177 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 208963000178 dimer interface [polypeptide binding]; other site 208963000179 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 208963000180 Ligand Binding Site [chemical binding]; other site 208963000181 Molecular Tunnel; other site 208963000182 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 208963000183 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 208963000184 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 208963000185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3812 208963000186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000188 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 208963000189 putative effector binding pocket; other site 208963000190 dimerization interface [polypeptide binding]; other site 208963000191 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 208963000192 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 208963000193 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 208963000194 catalytic residues [active] 208963000195 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 208963000196 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 208963000197 Predicted aminopeptidase [General function prediction only]; Region: COG4324 208963000198 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 208963000199 Eukaryotic phosphomannomutase; Region: PMM; cl17107 208963000200 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 208963000201 motif II; other site 208963000202 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 208963000203 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 208963000204 trimer interface [polypeptide binding]; other site 208963000205 putative metal binding site [ion binding]; other site 208963000206 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 208963000207 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 208963000208 active site 208963000209 Zn binding site [ion binding]; other site 208963000210 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 208963000211 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 208963000212 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 208963000213 FeS/SAM binding site; other site 208963000214 Uncharacterized conserved protein [Function unknown]; Region: COG1262 208963000215 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 208963000216 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 208963000217 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963000218 Walker A/P-loop; other site 208963000219 ATP binding site [chemical binding]; other site 208963000220 Q-loop/lid; other site 208963000221 ABC transporter signature motif; other site 208963000222 Walker B; other site 208963000223 D-loop; other site 208963000224 H-loop/switch region; other site 208963000225 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 208963000226 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 208963000227 active site 208963000228 ATP binding site [chemical binding]; other site 208963000229 substrate binding site [chemical binding]; other site 208963000230 activation loop (A-loop); other site 208963000231 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 208963000232 metal ion-dependent adhesion site (MIDAS); other site 208963000233 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 208963000234 active site 208963000235 Protein phosphatase 2C; Region: PP2C; pfam00481 208963000236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SciT; COG3913 208963000237 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 208963000238 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 208963000239 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 208963000240 hypothetical protein; Provisional; Region: PRK07033 208963000241 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 208963000242 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963000243 ligand binding site [chemical binding]; other site 208963000244 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 208963000245 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 208963000246 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 208963000247 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 208963000248 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 208963000249 phosphopeptide binding site; other site 208963000250 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 208963000251 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 208963000252 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 208963000253 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 208963000254 Protein of unknown function (DUF877); Region: DUF877; pfam05943 208963000255 Protein of unknown function (DUF796); Region: DUF796; pfam05638 208963000256 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 208963000257 ImpE protein; Region: ImpE; pfam07024 208963000258 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 208963000259 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 208963000260 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 208963000261 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 208963000262 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 208963000263 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 208963000264 Walker A motif; other site 208963000265 ATP binding site [chemical binding]; other site 208963000266 Walker B motif; other site 208963000267 arginine finger; other site 208963000268 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 208963000269 Walker A motif; other site 208963000270 ATP binding site [chemical binding]; other site 208963000271 Walker B motif; other site 208963000272 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 208963000273 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963000274 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963000275 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963000276 PAAR motif; Region: PAAR_motif; pfam05488 208963000277 Uncharacterized conserved protein [Function unknown]; Region: COG5435 208963000278 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963000279 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963000280 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963000281 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 208963000282 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 208963000283 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 208963000284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5351 208963000285 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 208963000286 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 208963000287 active site 208963000288 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 208963000289 conserved hypothetical protein; Region: TIGR02270 208963000290 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 208963000291 active site clefts [active] 208963000292 zinc binding site [ion binding]; other site 208963000293 dimer interface [polypeptide binding]; other site 208963000294 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 208963000295 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 208963000296 Sulfate transporter family; Region: Sulfate_transp; pfam00916 208963000297 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 208963000298 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 208963000299 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 208963000300 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 208963000301 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963000302 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963000303 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 208963000304 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 208963000305 Subunit I/III interface [polypeptide binding]; other site 208963000306 D-pathway; other site 208963000307 Subunit I/VIIc interface [polypeptide binding]; other site 208963000308 Subunit I/IV interface [polypeptide binding]; other site 208963000309 Subunit I/II interface [polypeptide binding]; other site 208963000310 Low-spin heme (heme a) binding site [chemical binding]; other site 208963000311 Subunit I/VIIa interface [polypeptide binding]; other site 208963000312 Subunit I/VIa interface [polypeptide binding]; other site 208963000313 Dimer interface; other site 208963000314 Putative water exit pathway; other site 208963000315 Binuclear center (heme a3/CuB) [ion binding]; other site 208963000316 K-pathway; other site 208963000317 Subunit I/Vb interface [polypeptide binding]; other site 208963000318 Putative proton exit pathway; other site 208963000319 Subunit I/VIb interface; other site 208963000320 Subunit I/VIc interface [polypeptide binding]; other site 208963000321 Electron transfer pathway; other site 208963000322 Subunit I/VIIIb interface [polypeptide binding]; other site 208963000323 Subunit I/VIIb interface [polypeptide binding]; other site 208963000324 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 208963000325 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 208963000326 Subunit III/VIIa interface [polypeptide binding]; other site 208963000327 Phospholipid binding site [chemical binding]; other site 208963000328 Subunit I/III interface [polypeptide binding]; other site 208963000329 Subunit III/VIb interface [polypeptide binding]; other site 208963000330 Subunit III/VIa interface; other site 208963000331 Subunit III/Vb interface [polypeptide binding]; other site 208963000332 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 208963000333 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 208963000334 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 208963000335 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 208963000336 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 208963000337 UbiA prenyltransferase family; Region: UbiA; pfam01040 208963000338 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 208963000339 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 208963000340 Cu(I) binding site [ion binding]; other site 208963000341 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 208963000342 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963000343 Coenzyme A binding pocket [chemical binding]; other site 208963000344 Predicted transcriptional regulators [Transcription]; Region: COG1733 208963000345 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 208963000346 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 208963000347 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 208963000348 putative NAD(P) binding site [chemical binding]; other site 208963000349 active site 208963000350 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 208963000351 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 208963000352 putative catalytic residue [active] 208963000353 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 208963000354 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 208963000355 Transcriptional regulators [Transcription]; Region: FadR; COG2186 208963000356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963000357 DNA-binding site [nucleotide binding]; DNA binding site 208963000358 FCD domain; Region: FCD; pfam07729 208963000359 Transcriptional regulators [Transcription]; Region: GntR; COG1802 208963000360 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 208963000361 DNA-binding site [nucleotide binding]; DNA binding site 208963000362 FCD domain; Region: FCD; pfam07729 208963000363 Aegerolysin; Region: Aegerolysin; pfam06355 208963000364 transcriptional regulator; Provisional; Region: PRK10632 208963000365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000366 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 208963000367 putative effector binding pocket; other site 208963000368 dimerization interface [polypeptide binding]; other site 208963000369 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 208963000370 Predicted transcriptional regulator [Transcription]; Region: COG3905 208963000371 Water Stress and Hypersensitive response; Region: WHy; smart00769 208963000372 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 208963000373 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 208963000374 PhnA protein; Region: PhnA; pfam03831 208963000375 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 208963000376 Spore germination protein; Region: Spore_permease; cl17796 208963000377 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 208963000378 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 208963000379 tetrameric interface [polypeptide binding]; other site 208963000380 NAD binding site [chemical binding]; other site 208963000381 catalytic residues [active] 208963000382 Cupin domain; Region: Cupin_2; cl17218 208963000383 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 208963000384 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 208963000385 inhibitor-cofactor binding pocket; inhibition site 208963000386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963000387 catalytic residue [active] 208963000388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000390 LysR substrate binding domain; Region: LysR_substrate; pfam03466 208963000391 dimerization interface [polypeptide binding]; other site 208963000392 guanine deaminase; Provisional; Region: PRK09228 208963000393 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 208963000394 active site 208963000395 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 208963000396 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 208963000397 Walker A/P-loop; other site 208963000398 ATP binding site [chemical binding]; other site 208963000399 Q-loop/lid; other site 208963000400 ABC transporter signature motif; other site 208963000401 Walker B; other site 208963000402 D-loop; other site 208963000403 H-loop/switch region; other site 208963000404 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 208963000405 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 208963000406 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 208963000407 TM-ABC transporter signature motif; other site 208963000408 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 208963000409 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 208963000410 TM-ABC transporter signature motif; other site 208963000411 peroxiredoxin; Region: AhpC; TIGR03137 208963000412 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 208963000413 dimer interface [polypeptide binding]; other site 208963000414 decamer (pentamer of dimers) interface [polypeptide binding]; other site 208963000415 catalytic triad [active] 208963000416 peroxidatic and resolving cysteines [active] 208963000417 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 208963000418 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 208963000419 catalytic residue [active] 208963000420 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 208963000421 catalytic residues [active] 208963000422 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963000423 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963000424 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 208963000425 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 208963000426 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 208963000427 active site 208963000428 putative substrate binding pocket [chemical binding]; other site 208963000429 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 208963000430 active site 208963000431 tetramer interface [polypeptide binding]; other site 208963000432 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 208963000433 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 208963000434 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 208963000435 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 208963000436 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 208963000437 putative ligand binding site [chemical binding]; other site 208963000438 oxidase reductase; Provisional; Region: PTZ00273 208963000439 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 208963000440 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 208963000441 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 208963000442 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 208963000443 active site 208963000444 purine riboside binding site [chemical binding]; other site 208963000445 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 208963000446 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963000447 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 208963000448 DNA binding residues [nucleotide binding] 208963000449 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963000450 FecR protein; Region: FecR; pfam04773 208963000451 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963000452 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963000453 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 208963000454 N-terminal plug; other site 208963000455 ligand-binding site [chemical binding]; other site 208963000456 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 208963000457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000458 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 208963000459 dimerization interface [polypeptide binding]; other site 208963000460 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 208963000461 heterodimer interface [polypeptide binding]; other site 208963000462 multimer interface [polypeptide binding]; other site 208963000463 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 208963000464 active site 208963000465 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 208963000466 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 208963000467 heterodimer interface [polypeptide binding]; other site 208963000468 active site 208963000469 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 208963000470 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 208963000471 Bacterial transcriptional regulator; Region: IclR; pfam01614 208963000472 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963000473 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963000474 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963000475 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963000476 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963000477 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963000478 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 208963000479 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000481 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 208963000482 putative effector binding pocket; other site 208963000483 dimerization interface [polypeptide binding]; other site 208963000484 outer membrane porin, OprD family; Region: OprD; pfam03573 208963000485 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963000486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963000487 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963000488 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 208963000489 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 208963000490 Nucleoside-binding outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: Tsx; COG3248 208963000491 xanthine permease; Region: pbuX; TIGR03173 208963000492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963000493 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 208963000494 Uncharacterized conserved protein [Function unknown]; Region: COG1739 208963000495 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 208963000496 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 208963000497 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963000498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963000499 metal binding site [ion binding]; metal-binding site 208963000500 active site 208963000501 I-site; other site 208963000502 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 208963000503 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 208963000504 dimerization interface [polypeptide binding]; other site 208963000505 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 208963000506 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 208963000507 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 208963000508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963000509 active site 208963000510 phosphorylation site [posttranslational modification] 208963000511 intermolecular recognition site; other site 208963000512 dimerization interface [polypeptide binding]; other site 208963000513 CheB methylesterase; Region: CheB_methylest; pfam01339 208963000514 CheD chemotactic sensory transduction; Region: CheD; cl00810 208963000515 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 208963000516 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 208963000517 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 208963000518 PAS domain; Region: PAS; smart00091 208963000519 PAS domain; Region: PAS_9; pfam13426 208963000520 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963000521 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963000522 dimer interface [polypeptide binding]; other site 208963000523 putative CheW interface [polypeptide binding]; other site 208963000524 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 208963000525 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 208963000526 putative binding surface; other site 208963000527 active site 208963000528 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 208963000529 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 208963000530 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963000531 ATP binding site [chemical binding]; other site 208963000532 G-X-G motif; other site 208963000533 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 208963000534 Response regulator receiver domain; Region: Response_reg; pfam00072 208963000535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963000536 active site 208963000537 phosphorylation site [posttranslational modification] 208963000538 intermolecular recognition site; other site 208963000539 dimerization interface [polypeptide binding]; other site 208963000540 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 208963000541 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963000542 putative CheW interface [polypeptide binding]; other site 208963000543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000545 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 208963000546 putative effector binding pocket; other site 208963000547 dimerization interface [polypeptide binding]; other site 208963000548 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 208963000549 classical (c) SDRs; Region: SDR_c; cd05233 208963000550 NAD(P) binding site [chemical binding]; other site 208963000551 active site 208963000552 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 208963000553 Sulfatase; Region: Sulfatase; pfam00884 208963000554 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 208963000555 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 208963000556 Walker A/P-loop; other site 208963000557 ATP binding site [chemical binding]; other site 208963000558 Q-loop/lid; other site 208963000559 ABC transporter signature motif; other site 208963000560 Walker B; other site 208963000561 D-loop; other site 208963000562 H-loop/switch region; other site 208963000563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000565 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 208963000566 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 208963000567 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 208963000568 outer membrane porin, OprD family; Region: OprD; pfam03573 208963000569 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 208963000570 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 208963000571 active site 208963000572 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000574 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 208963000575 dimerization interface [polypeptide binding]; other site 208963000576 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963000577 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 208963000578 N-terminal plug; other site 208963000579 ligand-binding site [chemical binding]; other site 208963000580 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 208963000581 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 208963000582 active site 208963000583 iron coordination sites [ion binding]; other site 208963000584 substrate binding pocket [chemical binding]; other site 208963000585 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 208963000586 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 208963000587 active site 208963000588 iron coordination sites [ion binding]; other site 208963000589 substrate binding pocket [chemical binding]; other site 208963000590 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 208963000591 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 208963000592 ligand binding site [chemical binding]; other site 208963000593 homodimer interface [polypeptide binding]; other site 208963000594 NAD(P) binding site [chemical binding]; other site 208963000595 trimer interface B [polypeptide binding]; other site 208963000596 trimer interface A [polypeptide binding]; other site 208963000597 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 208963000598 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 208963000599 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 208963000600 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 208963000601 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 208963000602 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 208963000603 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 208963000604 TolR protein; Region: tolR; TIGR02801 208963000605 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 208963000606 Serine hydrolase; Region: Ser_hydrolase; pfam06821 208963000607 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 208963000608 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 208963000609 Coenzyme A transferase; Region: CoA_trans; cl17247 208963000610 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 208963000611 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 208963000612 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 208963000613 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 208963000614 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 208963000615 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 208963000616 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 208963000617 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 208963000618 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 208963000619 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 208963000620 Malonate transporter MadL subunit; Region: MadL; cl04273 208963000621 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 208963000622 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000624 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 208963000625 putative dimerization interface [polypeptide binding]; other site 208963000626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000628 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 208963000629 putative substrate binding pocket [chemical binding]; other site 208963000630 dimerization interface [polypeptide binding]; other site 208963000631 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 208963000632 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 208963000633 NAD(P) binding site [chemical binding]; other site 208963000634 catalytic residues [active] 208963000635 amino acid transporter; Region: 2A0306; TIGR00909 208963000636 putative aminotransferase; Provisional; Region: PRK12403 208963000637 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 208963000638 inhibitor-cofactor binding pocket; inhibition site 208963000639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963000640 catalytic residue [active] 208963000641 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 208963000642 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 208963000643 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 208963000644 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 208963000645 inhibitor site; inhibition site 208963000646 active site 208963000647 dimer interface [polypeptide binding]; other site 208963000648 catalytic residue [active] 208963000649 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 208963000650 intersubunit interface [polypeptide binding]; other site 208963000651 active site 208963000652 Zn2+ binding site [ion binding]; other site 208963000653 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 208963000654 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 208963000655 sequence-specific DNA binding site [nucleotide binding]; other site 208963000656 salt bridge; other site 208963000657 Cupin domain; Region: Cupin_2; pfam07883 208963000658 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 208963000659 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 208963000660 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 208963000661 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 208963000662 dimer interface [polypeptide binding]; other site 208963000663 active site 208963000664 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 208963000665 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963000666 putative substrate translocation pore; other site 208963000667 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 208963000668 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 208963000669 tetramer interface [polypeptide binding]; other site 208963000670 active site 208963000671 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 208963000672 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 208963000673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000675 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 208963000676 dimerization interface [polypeptide binding]; other site 208963000677 benzoate transport; Region: 2A0115; TIGR00895 208963000678 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963000679 putative substrate translocation pore; other site 208963000680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963000681 Transcriptional regulator [Transcription]; Region: IclR; COG1414 208963000682 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 208963000683 Bacterial transcriptional regulator; Region: IclR; pfam01614 208963000684 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 208963000685 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 208963000686 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 208963000687 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 208963000688 EamA-like transporter family; Region: EamA; pfam00892 208963000689 outer membrane porin, OprD family; Region: OprD; pfam03573 208963000690 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963000691 D-galactonate transporter; Region: 2A0114; TIGR00893 208963000692 putative substrate translocation pore; other site 208963000693 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 208963000694 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 208963000695 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 208963000696 dimer interface [polypeptide binding]; other site 208963000697 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 208963000698 active site 208963000699 Fe binding site [ion binding]; other site 208963000700 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963000701 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963000702 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 208963000703 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 208963000704 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 208963000705 shikimate binding site; other site 208963000706 NAD(P) binding site [chemical binding]; other site 208963000707 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 208963000708 Dehydroquinase class II; Region: DHquinase_II; pfam01220 208963000709 active site 208963000710 trimer interface [polypeptide binding]; other site 208963000711 dimer interface [polypeptide binding]; other site 208963000712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963000713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963000714 putative substrate translocation pore; other site 208963000715 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963000716 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 208963000717 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963000718 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 208963000719 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963000720 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963000721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963000722 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963000723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963000724 Coenzyme A binding pocket [chemical binding]; other site 208963000725 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 208963000726 FOG: CBS domain [General function prediction only]; Region: COG0517 208963000727 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 208963000728 MarR family; Region: MarR_2; cl17246 208963000729 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 208963000730 Predicted membrane protein [Function unknown]; Region: COG3619 208963000731 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 208963000732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 208963000733 HTH-like domain; Region: HTH_21; pfam13276 208963000734 Integrase core domain; Region: rve; pfam00665 208963000735 Integrase core domain; Region: rve_3; pfam13683 208963000736 Transposase; Region: HTH_Tnp_1; pfam01527 208963000737 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 208963000738 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 208963000739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 208963000740 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963000741 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963000742 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 208963000743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 208963000744 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 208963000745 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 208963000746 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 208963000747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 208963000748 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 208963000749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 208963000750 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 208963000751 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 208963000752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 208963000753 Transposase; Region: HTH_Tnp_1; pfam01527 208963000754 HTH-like domain; Region: HTH_21; pfam13276 208963000755 Integrase core domain; Region: rve; pfam00665 208963000756 DDE domain; Region: DDE_Tnp_IS240; pfam13610 208963000757 Integrase core domain; Region: rve_3; pfam13683 208963000758 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 208963000759 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 208963000760 histidinol-phosphatase; Provisional; Region: PRK07328 208963000761 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 208963000762 active site 208963000763 dimer interface [polypeptide binding]; other site 208963000764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 208963000765 hypothetical protein; Provisional; Region: PRK10236 208963000766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 208963000767 Double zinc ribbon; Region: DZR; pfam12773 208963000768 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 208963000769 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 208963000770 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 208963000771 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 208963000772 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 208963000773 tetramerization interface [polypeptide binding]; other site 208963000774 NAD(P) binding site [chemical binding]; other site 208963000775 catalytic residues [active] 208963000776 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 208963000777 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 208963000778 inhibitor-cofactor binding pocket; inhibition site 208963000779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963000780 catalytic residue [active] 208963000781 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963000782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963000783 active site 208963000784 phosphorylation site [posttranslational modification] 208963000785 intermolecular recognition site; other site 208963000786 dimerization interface [polypeptide binding]; other site 208963000787 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 208963000788 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963000789 DNA-binding site [nucleotide binding]; DNA binding site 208963000790 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 208963000791 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 208963000792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963000793 homodimer interface [polypeptide binding]; other site 208963000794 catalytic residue [active] 208963000795 Uncharacterized conserved protein [Function unknown]; Region: COG2128 208963000796 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 208963000797 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 208963000798 Uncharacterized conserved protein [Function unknown]; Region: COG1359 208963000799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000801 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 208963000802 substrate binding pocket [chemical binding]; other site 208963000803 dimerization interface [polypeptide binding]; other site 208963000804 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 208963000805 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963000806 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 208963000807 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 208963000808 ligand binding site [chemical binding]; other site 208963000809 flexible hinge region; other site 208963000810 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 208963000811 Protein of unknown function (DUF962); Region: DUF962; cl01879 208963000812 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 208963000813 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 208963000814 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 208963000815 dimerization interface [polypeptide binding]; other site 208963000816 putative DNA binding site [nucleotide binding]; other site 208963000817 putative Zn2+ binding site [ion binding]; other site 208963000818 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 208963000819 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 208963000820 Walker A/P-loop; other site 208963000821 ATP binding site [chemical binding]; other site 208963000822 Q-loop/lid; other site 208963000823 ABC transporter signature motif; other site 208963000824 Walker B; other site 208963000825 D-loop; other site 208963000826 H-loop/switch region; other site 208963000827 TOBE-like domain; Region: TOBE_3; pfam12857 208963000828 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 208963000829 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000830 dimer interface [polypeptide binding]; other site 208963000831 conserved gate region; other site 208963000832 putative PBP binding loops; other site 208963000833 ABC-ATPase subunit interface; other site 208963000834 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 208963000835 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000836 dimer interface [polypeptide binding]; other site 208963000837 conserved gate region; other site 208963000838 putative PBP binding loops; other site 208963000839 ABC-ATPase subunit interface; other site 208963000840 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 208963000841 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 208963000842 Uncharacterized small protein [Function unknown]; Region: COG5583 208963000843 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 208963000844 PAS fold; Region: PAS_3; pfam08447 208963000845 putative active site [active] 208963000846 heme pocket [chemical binding]; other site 208963000847 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 208963000848 PAS domain; Region: PAS_9; pfam13426 208963000849 putative active site [active] 208963000850 heme pocket [chemical binding]; other site 208963000851 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963000852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963000853 metal binding site [ion binding]; metal-binding site 208963000854 active site 208963000855 I-site; other site 208963000856 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 208963000857 Fatty acid desaturase; Region: FA_desaturase; pfam00487 208963000858 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 208963000859 Di-iron ligands [ion binding]; other site 208963000860 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 208963000861 Transposase; Region: DDE_Tnp_ISL3; pfam01610 208963000862 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 208963000863 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 208963000864 Na binding site [ion binding]; other site 208963000865 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 208963000866 agmatinase; Region: agmatinase; TIGR01230 208963000867 oligomer interface [polypeptide binding]; other site 208963000868 putative active site [active] 208963000869 Mn binding site [ion binding]; other site 208963000870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963000871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963000872 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 208963000873 dimerization interface [polypeptide binding]; other site 208963000874 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 208963000875 PAS fold; Region: PAS_3; pfam08447 208963000876 putative active site [active] 208963000877 heme pocket [chemical binding]; other site 208963000878 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963000879 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963000880 metal binding site [ion binding]; metal-binding site 208963000881 active site 208963000882 I-site; other site 208963000883 outer membrane porin, OprD family; Region: OprD; pfam03573 208963000884 agmatine deiminase; Provisional; Region: PRK13551 208963000885 agmatine deiminase; Region: agmatine_aguA; TIGR03380 208963000886 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 208963000887 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 208963000888 putative active site; other site 208963000889 catalytic triad [active] 208963000890 putative dimer interface [polypeptide binding]; other site 208963000891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963000892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963000893 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 208963000894 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963000895 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 208963000896 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 208963000897 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963000898 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 208963000899 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 208963000900 catalytic triad [active] 208963000901 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 208963000902 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963000903 putative aminotransferase; Validated; Region: PRK07480 208963000904 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 208963000905 inhibitor-cofactor binding pocket; inhibition site 208963000906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963000907 catalytic residue [active] 208963000908 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 208963000909 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963000910 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 208963000911 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963000912 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 208963000913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963000914 Walker A/P-loop; other site 208963000915 ATP binding site [chemical binding]; other site 208963000916 Q-loop/lid; other site 208963000917 ABC transporter signature motif; other site 208963000918 Walker B; other site 208963000919 D-loop; other site 208963000920 H-loop/switch region; other site 208963000921 TOBE domain; Region: TOBE_2; pfam08402 208963000922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000923 dimer interface [polypeptide binding]; other site 208963000924 conserved gate region; other site 208963000925 putative PBP binding loops; other site 208963000926 ABC-ATPase subunit interface; other site 208963000927 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 208963000928 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000929 dimer interface [polypeptide binding]; other site 208963000930 conserved gate region; other site 208963000931 putative PBP binding loops; other site 208963000932 ABC-ATPase subunit interface; other site 208963000933 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 208963000934 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 208963000935 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 208963000936 active site 208963000937 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963000938 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963000939 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 208963000940 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 208963000941 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963000942 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 208963000943 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 208963000944 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 208963000945 Uncharacterized conserved protein [Function unknown]; Region: COG1683 208963000946 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963000947 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000948 dimer interface [polypeptide binding]; other site 208963000949 conserved gate region; other site 208963000950 putative PBP binding loops; other site 208963000951 ABC-ATPase subunit interface; other site 208963000952 cystine transporter subunit; Provisional; Region: PRK11260 208963000953 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 208963000954 substrate binding pocket [chemical binding]; other site 208963000955 membrane-bound complex binding site; other site 208963000956 hinge residues; other site 208963000957 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 208963000958 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 208963000959 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 208963000960 ligand binding site [chemical binding]; other site 208963000961 NAD binding site [chemical binding]; other site 208963000962 tetramer interface [polypeptide binding]; other site 208963000963 catalytic site [active] 208963000964 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 208963000965 L-serine binding site [chemical binding]; other site 208963000966 ACT domain interface; other site 208963000967 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 208963000968 FAD binding domain; Region: FAD_binding_4; pfam01565 208963000969 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 208963000970 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 208963000971 SdiA-regulated; Region: SdiA-regulated; pfam06977 208963000972 SdiA-regulated; Region: SdiA-regulated; cd09971 208963000973 putative active site [active] 208963000974 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 208963000975 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 208963000976 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 208963000977 active site 208963000978 Zn binding site [ion binding]; other site 208963000979 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 208963000980 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 208963000981 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 208963000982 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 208963000983 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000984 dimer interface [polypeptide binding]; other site 208963000985 conserved gate region; other site 208963000986 putative PBP binding loops; other site 208963000987 ABC-ATPase subunit interface; other site 208963000988 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963000989 dimer interface [polypeptide binding]; other site 208963000990 conserved gate region; other site 208963000991 putative PBP binding loops; other site 208963000992 ABC-ATPase subunit interface; other site 208963000993 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 208963000994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963000995 Walker A/P-loop; other site 208963000996 ATP binding site [chemical binding]; other site 208963000997 Q-loop/lid; other site 208963000998 ABC transporter signature motif; other site 208963000999 Walker B; other site 208963001000 D-loop; other site 208963001001 H-loop/switch region; other site 208963001002 TOBE domain; Region: TOBE_2; pfam08402 208963001003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 208963001004 SdiA-regulated; Region: SdiA-regulated; cd09971 208963001005 putative active site [active] 208963001006 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 208963001007 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 208963001008 metal binding site [ion binding]; metal-binding site 208963001009 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 208963001010 Uncharacterized conserved protein [Function unknown]; Region: COG3422 208963001011 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 208963001012 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 208963001013 tetramer (dimer of dimers) interface [polypeptide binding]; other site 208963001014 active site 208963001015 dimer interface [polypeptide binding]; other site 208963001016 threonine dehydratase; Reviewed; Region: PRK09224 208963001017 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 208963001018 tetramer interface [polypeptide binding]; other site 208963001019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963001020 catalytic residue [active] 208963001021 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 208963001022 putative Ile/Val binding site [chemical binding]; other site 208963001023 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 208963001024 putative Ile/Val binding site [chemical binding]; other site 208963001025 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 208963001026 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 208963001027 NADH(P)-binding; Region: NAD_binding_10; pfam13460 208963001028 putative NAD(P) binding site [chemical binding]; other site 208963001029 active site 208963001030 DoxX-like family; Region: DoxX_3; pfam13781 208963001031 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 208963001032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963001033 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963001034 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 208963001035 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 208963001036 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 208963001037 putative active site [active] 208963001038 Ap4A binding site [chemical binding]; other site 208963001039 nudix motif; other site 208963001040 putative metal binding site [ion binding]; other site 208963001041 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 208963001042 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 208963001043 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 208963001044 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 208963001045 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 208963001046 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 208963001047 PAS fold; Region: PAS_3; pfam08447 208963001048 putative active site [active] 208963001049 heme pocket [chemical binding]; other site 208963001050 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963001051 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963001052 metal binding site [ion binding]; metal-binding site 208963001053 active site 208963001054 I-site; other site 208963001055 Uncharacterized conserved protein [Function unknown]; Region: COG3332 208963001056 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 208963001057 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 208963001058 thymidylate synthase; Reviewed; Region: thyA; PRK01827 208963001059 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 208963001060 dimerization interface [polypeptide binding]; other site 208963001061 active site 208963001062 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 208963001063 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 208963001064 G1 box; other site 208963001065 GTP/Mg2+ binding site [chemical binding]; other site 208963001066 G2 box; other site 208963001067 Switch I region; other site 208963001068 G3 box; other site 208963001069 Switch II region; other site 208963001070 G4 box; other site 208963001071 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 208963001072 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 208963001073 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 208963001074 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 208963001075 putative active site [active] 208963001076 catalytic site [active] 208963001077 putative metal binding site [ion binding]; other site 208963001078 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 208963001079 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 208963001080 folate binding site [chemical binding]; other site 208963001081 NADP+ binding site [chemical binding]; other site 208963001082 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 208963001083 active site 208963001084 metal binding site [ion binding]; metal-binding site 208963001085 homotetramer interface [polypeptide binding]; other site 208963001086 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 208963001087 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 208963001088 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 208963001089 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 208963001090 putative RNA binding site [nucleotide binding]; other site 208963001091 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 208963001092 S-adenosylmethionine binding site [chemical binding]; other site 208963001093 intracellular protease, PfpI family; Region: PfpI; TIGR01382 208963001094 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 208963001095 proposed catalytic triad [active] 208963001096 conserved cys residue [active] 208963001097 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 208963001098 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 208963001099 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 208963001100 DNA binding site [nucleotide binding] 208963001101 catalytic residue [active] 208963001102 H2TH interface [polypeptide binding]; other site 208963001103 putative catalytic residues [active] 208963001104 turnover-facilitating residue; other site 208963001105 intercalation triad [nucleotide binding]; other site 208963001106 8OG recognition residue [nucleotide binding]; other site 208963001107 putative reading head residues; other site 208963001108 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 208963001109 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 208963001110 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 208963001111 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 208963001112 putative acyl-acceptor binding pocket; other site 208963001113 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963001114 Sel1-like repeats; Region: SEL1; smart00671 208963001115 Sel1-like repeats; Region: SEL1; smart00671 208963001116 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 208963001117 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 208963001118 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 208963001119 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 208963001120 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 208963001121 active site 208963001122 (T/H)XGH motif; other site 208963001123 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 208963001124 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 208963001125 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 208963001126 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 208963001127 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 208963001128 NAD(P) binding site [chemical binding]; other site 208963001129 catalytic residues [active] 208963001130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963001131 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963001132 Bacterial transcriptional repressor; Region: TetR; pfam13972 208963001133 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963001134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963001135 Coenzyme A binding pocket [chemical binding]; other site 208963001136 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 208963001137 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 208963001138 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 208963001139 S-adenosylmethionine binding site [chemical binding]; other site 208963001140 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 208963001141 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 208963001142 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 208963001143 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 208963001144 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 208963001145 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 208963001146 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 208963001147 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 208963001148 P loop; other site 208963001149 GTP binding site [chemical binding]; other site 208963001150 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 208963001151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963001152 Walker A/P-loop; other site 208963001153 ATP binding site [chemical binding]; other site 208963001154 Q-loop/lid; other site 208963001155 ABC transporter signature motif; other site 208963001156 Walker B; other site 208963001157 D-loop; other site 208963001158 H-loop/switch region; other site 208963001159 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 208963001160 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 208963001161 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 208963001162 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 208963001163 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963001164 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 208963001165 DNA binding residues [nucleotide binding] 208963001166 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 208963001167 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 208963001168 Protein of unknown function (DUF423); Region: DUF423; pfam04241 208963001169 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 208963001170 thiS-thiF/thiG interaction site; other site 208963001171 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 208963001172 ThiS interaction site; other site 208963001173 putative active site [active] 208963001174 tetramer interface [polypeptide binding]; other site 208963001175 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 208963001176 S-adenosylmethionine binding site [chemical binding]; other site 208963001177 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 208963001178 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 208963001179 HemN family oxidoreductase; Provisional; Region: PRK05660 208963001180 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 208963001181 FeS/SAM binding site; other site 208963001182 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 208963001183 active site 208963001184 dimerization interface [polypeptide binding]; other site 208963001185 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 208963001186 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963001187 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 208963001188 S-adenosylmethionine binding site [chemical binding]; other site 208963001189 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 208963001190 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 208963001191 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 208963001192 G1 box; other site 208963001193 GTP/Mg2+ binding site [chemical binding]; other site 208963001194 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 208963001195 G2 box; other site 208963001196 Switch I region; other site 208963001197 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 208963001198 G3 box; other site 208963001199 Switch II region; other site 208963001200 GTP/Mg2+ binding site [chemical binding]; other site 208963001201 G4 box; other site 208963001202 G5 box; other site 208963001203 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 208963001204 YGGT family; Region: YGGT; pfam02325 208963001205 YGGT family; Region: YGGT; pfam02325 208963001206 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 208963001207 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 208963001208 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 208963001209 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 208963001210 catalytic residue [active] 208963001211 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 208963001212 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 208963001213 Walker A motif; other site 208963001214 ATP binding site [chemical binding]; other site 208963001215 Walker B motif; other site 208963001216 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 208963001217 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 208963001218 Walker A motif; other site 208963001219 ATP binding site [chemical binding]; other site 208963001220 Walker B motif; other site 208963001221 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 208963001222 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 208963001223 TM2 domain; Region: TM2; cl00984 208963001224 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 208963001225 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 208963001226 dimer interface [polypeptide binding]; other site 208963001227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963001228 catalytic residue [active] 208963001229 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 208963001230 FOG: CBS domain [General function prediction only]; Region: COG0517 208963001231 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 208963001232 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 208963001233 homodimer interface [polypeptide binding]; other site 208963001234 substrate-cofactor binding pocket; other site 208963001235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963001236 catalytic residue [active] 208963001237 dihydroorotase; Validated; Region: pyrC; PRK09357 208963001238 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 208963001239 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 208963001240 active site 208963001241 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 208963001242 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 208963001243 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 208963001244 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 208963001245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963001246 active site 208963001247 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 208963001248 hypothetical protein; Validated; Region: PRK00228 208963001249 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 208963001250 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 208963001251 glutathione synthetase; Provisional; Region: PRK05246 208963001252 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 208963001253 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 208963001254 Response regulator receiver domain; Region: Response_reg; pfam00072 208963001255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963001256 active site 208963001257 phosphorylation site [posttranslational modification] 208963001258 intermolecular recognition site; other site 208963001259 dimerization interface [polypeptide binding]; other site 208963001260 Response regulator receiver domain; Region: Response_reg; pfam00072 208963001261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963001262 active site 208963001263 phosphorylation site [posttranslational modification] 208963001264 intermolecular recognition site; other site 208963001265 dimerization interface [polypeptide binding]; other site 208963001266 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 208963001267 putative CheA interaction surface; other site 208963001268 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 208963001269 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963001270 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963001271 dimer interface [polypeptide binding]; other site 208963001272 putative CheW interface [polypeptide binding]; other site 208963001273 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 208963001274 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 208963001275 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 208963001276 Hpt domain; Region: Hpt; pfam01627 208963001277 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 208963001278 putative binding surface; other site 208963001279 active site 208963001280 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 208963001281 putative binding surface; other site 208963001282 active site 208963001283 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 208963001284 putative binding surface; other site 208963001285 active site 208963001286 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 208963001287 putative binding surface; other site 208963001288 active site 208963001289 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 208963001290 putative binding surface; other site 208963001291 active site 208963001292 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 208963001293 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 208963001294 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963001295 ATP binding site [chemical binding]; other site 208963001296 Mg2+ binding site [ion binding]; other site 208963001297 G-X-G motif; other site 208963001298 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 208963001299 Response regulator receiver domain; Region: Response_reg; pfam00072 208963001300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963001301 active site 208963001302 phosphorylation site [posttranslational modification] 208963001303 intermolecular recognition site; other site 208963001304 dimerization interface [polypeptide binding]; other site 208963001305 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 208963001306 CheB methylesterase; Region: CheB_methylest; pfam01339 208963001307 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 208963001308 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963001309 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963001310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963001311 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963001312 LysE type translocator; Region: LysE; pfam01810 208963001313 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 208963001314 RNA methyltransferase, RsmE family; Region: TIGR00046 208963001315 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 208963001316 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 208963001317 inhibitor-cofactor binding pocket; inhibition site 208963001318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963001319 catalytic residue [active] 208963001320 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 208963001321 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963001322 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 208963001323 hypothetical protein; Provisional; Region: PRK03757 208963001324 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 208963001325 MarR family; Region: MarR; pfam01047 208963001326 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 208963001327 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963001328 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963001329 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 208963001330 Protein export membrane protein; Region: SecD_SecF; cl14618 208963001331 Protein export membrane protein; Region: SecD_SecF; cl14618 208963001332 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 208963001333 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 208963001334 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 208963001335 ATP binding site [chemical binding]; other site 208963001336 Mg++ binding site [ion binding]; other site 208963001337 motif III; other site 208963001338 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 208963001339 nucleotide binding region [chemical binding]; other site 208963001340 ATP-binding site [chemical binding]; other site 208963001341 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 208963001342 FAD binding site [chemical binding]; other site 208963001343 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 208963001344 HD domain; Region: HD_4; pfam13328 208963001345 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 208963001346 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 208963001347 homotetramer interface [polypeptide binding]; other site 208963001348 ligand binding site [chemical binding]; other site 208963001349 catalytic site [active] 208963001350 NAD binding site [chemical binding]; other site 208963001351 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 208963001352 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963001353 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 208963001354 N-terminal plug; other site 208963001355 ligand-binding site [chemical binding]; other site 208963001356 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 208963001357 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 208963001358 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 208963001359 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963001360 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 208963001361 cytosine deaminase; Provisional; Region: PRK09230 208963001362 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 208963001363 active site 208963001364 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 208963001365 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 208963001366 Na binding site [ion binding]; other site 208963001367 putative substrate binding site [chemical binding]; other site 208963001368 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 208963001369 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 208963001370 homodimer interface [polypeptide binding]; other site 208963001371 active site 208963001372 FMN binding site [chemical binding]; other site 208963001373 substrate binding site [chemical binding]; other site 208963001374 4Fe-4S binding domain; Region: Fer4_6; pfam12837 208963001375 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 208963001376 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963001377 phenylhydantoinase; Validated; Region: PRK08323 208963001378 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 208963001379 tetramer interface [polypeptide binding]; other site 208963001380 active site 208963001381 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 208963001382 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 208963001383 Na binding site [ion binding]; other site 208963001384 putative substrate binding site [chemical binding]; other site 208963001385 allantoate amidohydrolase; Reviewed; Region: PRK09290 208963001386 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 208963001387 active site 208963001388 metal binding site [ion binding]; metal-binding site 208963001389 dimer interface [polypeptide binding]; other site 208963001390 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 208963001391 CoA-transferase family III; Region: CoA_transf_3; pfam02515 208963001392 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 208963001393 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963001394 FAD binding site [chemical binding]; other site 208963001395 substrate binding pocket [chemical binding]; other site 208963001396 catalytic base [active] 208963001397 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963001398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963001399 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 208963001400 dimerization interface [polypeptide binding]; other site 208963001401 substrate binding pocket [chemical binding]; other site 208963001402 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 208963001403 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 208963001404 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 208963001405 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 208963001406 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 208963001407 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 208963001408 dimer interface [polypeptide binding]; other site 208963001409 active site residues [active] 208963001410 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 208963001411 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 208963001412 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 208963001413 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963001414 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 208963001415 substrate binding pocket [chemical binding]; other site 208963001416 membrane-bound complex binding site; other site 208963001417 hinge residues; other site 208963001418 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 208963001419 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 208963001420 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 208963001421 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 208963001422 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 208963001423 ATP binding site [chemical binding]; other site 208963001424 Mg++ binding site [ion binding]; other site 208963001425 motif III; other site 208963001426 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 208963001427 nucleotide binding region [chemical binding]; other site 208963001428 ATP-binding site [chemical binding]; other site 208963001429 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 208963001430 putative RNA binding site [nucleotide binding]; other site 208963001431 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 208963001432 DNA-binding site [nucleotide binding]; DNA binding site 208963001433 RNA-binding motif; other site 208963001434 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 208963001435 putative transporter; Provisional; Region: PRK10504 208963001436 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963001437 putative substrate translocation pore; other site 208963001438 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963001439 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 208963001440 Clp amino terminal domain; Region: Clp_N; pfam02861 208963001441 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 208963001442 Walker A motif; other site 208963001443 ATP binding site [chemical binding]; other site 208963001444 Walker B motif; other site 208963001445 arginine finger; other site 208963001446 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 208963001447 Walker A motif; other site 208963001448 ATP binding site [chemical binding]; other site 208963001449 Walker B motif; other site 208963001450 arginine finger; other site 208963001451 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 208963001452 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 208963001453 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 208963001454 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 208963001455 putative acyl-acceptor binding pocket; other site 208963001456 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 208963001457 DNA-binding response regulator CreB; Provisional; Region: PRK11083 208963001458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963001459 active site 208963001460 phosphorylation site [posttranslational modification] 208963001461 intermolecular recognition site; other site 208963001462 dimerization interface [polypeptide binding]; other site 208963001463 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 208963001464 DNA binding site [nucleotide binding] 208963001465 sensory histidine kinase CreC; Provisional; Region: PRK11100 208963001466 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 208963001467 dimer interface [polypeptide binding]; other site 208963001468 phosphorylation site [posttranslational modification] 208963001469 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963001470 ATP binding site [chemical binding]; other site 208963001471 G-X-G motif; other site 208963001472 Inner membrane protein CreD; Region: CreD; cl01844 208963001473 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963001474 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 208963001475 putative C-terminal domain interface [polypeptide binding]; other site 208963001476 putative GSH binding site (G-site) [chemical binding]; other site 208963001477 putative dimer interface [polypeptide binding]; other site 208963001478 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 208963001479 N-terminal domain interface [polypeptide binding]; other site 208963001480 dimer interface [polypeptide binding]; other site 208963001481 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 208963001482 Protein phosphatase 2C; Region: PP2C_2; pfam13672 208963001483 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963001484 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 208963001485 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 208963001486 N-terminal plug; other site 208963001487 ligand-binding site [chemical binding]; other site 208963001488 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963001489 FecR protein; Region: FecR; pfam04773 208963001490 RNA polymerase sigma factor; Reviewed; Region: PRK12523 208963001491 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963001492 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 208963001493 DNA binding residues [nucleotide binding] 208963001494 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963001495 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 208963001496 C-terminal domain interface [polypeptide binding]; other site 208963001497 GSH binding site (G-site) [chemical binding]; other site 208963001498 dimer interface [polypeptide binding]; other site 208963001499 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 208963001500 N-terminal domain interface [polypeptide binding]; other site 208963001501 dimer interface [polypeptide binding]; other site 208963001502 substrate binding pocket (H-site) [chemical binding]; other site 208963001503 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 208963001504 CoenzymeA binding site [chemical binding]; other site 208963001505 subunit interaction site [polypeptide binding]; other site 208963001506 PHB binding site; other site 208963001507 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963001508 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963001509 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 208963001510 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 208963001511 Na binding site [ion binding]; other site 208963001512 putative substrate binding site [chemical binding]; other site 208963001513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963001514 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 208963001515 putative substrate binding pocket [chemical binding]; other site 208963001516 dimerization interface [polypeptide binding]; other site 208963001517 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963001518 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963001519 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963001520 dimerization interface [polypeptide binding]; other site 208963001521 LysR substrate binding domain; Region: LysR_substrate; pfam03466 208963001522 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 208963001523 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 208963001524 active site 208963001525 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963001526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963001527 Coenzyme A binding pocket [chemical binding]; other site 208963001528 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 208963001529 ACT domain; Region: ACT_6; pfam13740 208963001530 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 208963001531 Predicted permeases [General function prediction only]; Region: RarD; COG2962 208963001532 EamA-like transporter family; Region: EamA; pfam00892 208963001533 serine/threonine protein kinase; Provisional; Region: PRK11768 208963001534 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 208963001535 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 208963001536 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 208963001537 TOBE domain; Region: TOBE; cl01440 208963001538 TOBE domain; Region: TOBE; cl01440 208963001539 lipoprotein; Provisional; Region: PRK10759 208963001540 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 208963001541 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963001542 active site 208963001543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963001544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963001545 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 208963001546 putative substrate binding pocket [chemical binding]; other site 208963001547 dimerization interface [polypeptide binding]; other site 208963001548 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 208963001549 putative active site [active] 208963001550 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 208963001551 carboxyltransferase (CT) interaction site; other site 208963001552 biotinylation site [posttranslational modification]; other site 208963001553 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 208963001554 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963001555 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963001556 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 208963001557 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 208963001558 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 208963001559 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 208963001560 biotin synthase; Provisional; Region: PRK15108 208963001561 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 208963001562 FeS/SAM binding site; other site 208963001563 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 208963001564 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 208963001565 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 208963001566 substrate-cofactor binding pocket; other site 208963001567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963001568 catalytic residue [active] 208963001569 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963001570 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 208963001571 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 208963001572 S-adenosylmethionine binding site [chemical binding]; other site 208963001573 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 208963001574 AAA domain; Region: AAA_26; pfam13500 208963001575 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 208963001576 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 208963001577 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963001578 active site 208963001579 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 208963001580 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 208963001581 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 208963001582 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963001583 active site 208963001584 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 208963001585 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 208963001586 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 208963001587 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963001588 active site 208963001589 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 208963001590 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963001591 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963001592 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 208963001593 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 208963001594 structural tetrad; other site 208963001595 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 208963001596 active site 208963001597 SAM binding site [chemical binding]; other site 208963001598 homodimer interface [polypeptide binding]; other site 208963001599 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 208963001600 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 208963001601 FeS/SAM binding site; other site 208963001602 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963001603 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963001604 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963001605 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963001606 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 208963001607 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963001608 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963001609 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 208963001610 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963001611 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963001612 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 208963001613 MoxR-like ATPases [General function prediction only]; Region: COG0714 208963001614 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 208963001615 Walker A motif; other site 208963001616 ATP binding site [chemical binding]; other site 208963001617 Walker B motif; other site 208963001618 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 208963001619 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 208963001620 Subunit I/III interface [polypeptide binding]; other site 208963001621 Cytochrome c; Region: Cytochrom_C; pfam00034 208963001622 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 208963001623 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 208963001624 Low-spin heme binding site [chemical binding]; other site 208963001625 D-pathway; other site 208963001626 Putative water exit pathway; other site 208963001627 Binuclear center (active site) [active] 208963001628 K-pathway; other site 208963001629 Putative proton exit pathway; other site 208963001630 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 208963001631 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 208963001632 metal ion-dependent adhesion site (MIDAS); other site 208963001633 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 208963001634 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 208963001635 ligand binding site [chemical binding]; other site 208963001636 flexible hinge region; other site 208963001637 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 208963001638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963001639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963001640 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 208963001641 dimerization interface [polypeptide binding]; other site 208963001642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 208963001643 MOSC domain; Region: MOSC; pfam03473 208963001644 3-alpha domain; Region: 3-alpha; pfam03475 208963001645 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 208963001646 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 208963001647 inhibitor-cofactor binding pocket; inhibition site 208963001648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963001649 catalytic residue [active] 208963001650 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 208963001651 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 208963001652 catalytic triad [active] 208963001653 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 208963001654 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 208963001655 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 208963001656 putative active site [active] 208963001657 heme pocket [chemical binding]; other site 208963001658 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 208963001659 putative active site [active] 208963001660 heme pocket [chemical binding]; other site 208963001661 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963001662 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 208963001663 DNA binding residues [nucleotide binding] 208963001664 dimerization interface [polypeptide binding]; other site 208963001665 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963001666 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963001667 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 208963001668 non-specific DNA binding site [nucleotide binding]; other site 208963001669 salt bridge; other site 208963001670 sequence-specific DNA binding site [nucleotide binding]; other site 208963001671 Cupin domain; Region: Cupin_2; pfam07883 208963001672 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 208963001673 Repair protein; Region: Repair_PSII; pfam04536 208963001674 LemA family; Region: LemA; pfam04011 208963001675 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 208963001676 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 208963001677 EamA-like transporter family; Region: EamA; cl17759 208963001678 Predicted membrane protein [Function unknown]; Region: COG3686 208963001679 Cytochrome c556 [Energy production and conversion]; Region: COG3909 208963001680 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 208963001681 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 208963001682 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 208963001683 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 208963001684 active site 208963001685 metal binding site [ion binding]; metal-binding site 208963001686 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 208963001687 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 208963001688 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 208963001689 FAD binding pocket [chemical binding]; other site 208963001690 FAD binding motif [chemical binding]; other site 208963001691 phosphate binding motif [ion binding]; other site 208963001692 beta-alpha-beta structure motif; other site 208963001693 NAD binding pocket [chemical binding]; other site 208963001694 S-adenosylmethionine synthetase; Validated; Region: PRK05250 208963001695 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 208963001696 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 208963001697 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 208963001698 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 208963001699 putative DNA binding site [nucleotide binding]; other site 208963001700 dimerization interface [polypeptide binding]; other site 208963001701 putative Zn2+ binding site [ion binding]; other site 208963001702 Methyltransferase domain; Region: Methyltransf_23; pfam13489 208963001703 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 208963001704 S-adenosylmethionine binding site [chemical binding]; other site 208963001705 transketolase; Reviewed; Region: PRK12753 208963001706 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 208963001707 TPP-binding site [chemical binding]; other site 208963001708 dimer interface [polypeptide binding]; other site 208963001709 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 208963001710 PYR/PP interface [polypeptide binding]; other site 208963001711 dimer interface [polypeptide binding]; other site 208963001712 TPP binding site [chemical binding]; other site 208963001713 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 208963001714 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 208963001715 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 208963001716 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 208963001717 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 208963001718 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 208963001719 Phosphoglycerate kinase; Region: PGK; pfam00162 208963001720 substrate binding site [chemical binding]; other site 208963001721 hinge regions; other site 208963001722 ADP binding site [chemical binding]; other site 208963001723 catalytic site [active] 208963001724 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 208963001725 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 208963001726 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 208963001727 intersubunit interface [polypeptide binding]; other site 208963001728 active site 208963001729 zinc binding site [ion binding]; other site 208963001730 Na+ binding site [ion binding]; other site 208963001731 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 208963001732 SnoaL-like domain; Region: SnoaL_3; pfam13474 208963001733 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963001734 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 208963001735 S-adenosylmethionine binding site [chemical binding]; other site 208963001736 Predicted flavoproteins [General function prediction only]; Region: COG2081 208963001737 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 208963001738 hydroxyglutarate oxidase; Provisional; Region: PRK11728 208963001739 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 208963001740 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 208963001741 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 208963001742 motif II; other site 208963001743 Protein of unknown function (DUF805); Region: DUF805; pfam05656 208963001744 Cupin; Region: Cupin_6; pfam12852 208963001745 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963001746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963001747 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 208963001748 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 208963001749 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 208963001750 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 208963001751 Peptidase M60-like family; Region: M60-like; pfam13402 208963001752 Nuclease-related domain; Region: NERD; pfam08378 208963001753 Fic family protein [Function unknown]; Region: COG3177 208963001754 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 208963001755 Fic/DOC family; Region: Fic; pfam02661 208963001756 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 208963001757 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 208963001758 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 208963001759 putative active site [active] 208963001760 putative NTP binding site [chemical binding]; other site 208963001761 putative nucleic acid binding site [nucleotide binding]; other site 208963001762 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 208963001763 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 208963001764 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 208963001765 active site 208963001766 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963001767 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 208963001768 substrate binding pocket [chemical binding]; other site 208963001769 membrane-bound complex binding site; other site 208963001770 hinge residues; other site 208963001771 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 208963001772 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 208963001773 putative active site [active] 208963001774 heme pocket [chemical binding]; other site 208963001775 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 208963001776 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 208963001777 putative active site [active] 208963001778 heme pocket [chemical binding]; other site 208963001779 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 208963001780 putative active site [active] 208963001781 heme pocket [chemical binding]; other site 208963001782 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 208963001783 putative active site [active] 208963001784 heme pocket [chemical binding]; other site 208963001785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963001786 metal binding site [ion binding]; metal-binding site 208963001787 active site 208963001788 I-site; other site 208963001789 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 208963001790 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 208963001791 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 208963001792 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 208963001793 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 208963001794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963001795 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 208963001796 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 208963001797 DNA binding residues [nucleotide binding] 208963001798 DNA primase, catalytic core; Region: dnaG; TIGR01391 208963001799 CHC2 zinc finger; Region: zf-CHC2; pfam01807 208963001800 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 208963001801 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 208963001802 active site 208963001803 metal binding site [ion binding]; metal-binding site 208963001804 interdomain interaction site; other site 208963001805 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 208963001806 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 208963001807 Yqey-like protein; Region: YqeY; pfam09424 208963001808 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 208963001809 UGMP family protein; Validated; Region: PRK09604 208963001810 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 208963001811 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 208963001812 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 208963001813 homooctamer interface [polypeptide binding]; other site 208963001814 active site 208963001815 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 208963001816 catalytic center binding site [active] 208963001817 ATP binding site [chemical binding]; other site 208963001818 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 208963001819 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 208963001820 active site 208963001821 NTP binding site [chemical binding]; other site 208963001822 metal binding triad [ion binding]; metal-binding site 208963001823 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 208963001824 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963001825 Zn2+ binding site [ion binding]; other site 208963001826 Mg2+ binding site [ion binding]; other site 208963001827 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 208963001828 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 208963001829 SpoVR family protein; Provisional; Region: PRK11767 208963001830 hypothetical protein; Provisional; Region: PRK05325 208963001831 PrkA family serine protein kinase; Provisional; Region: PRK15455 208963001832 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 208963001833 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 208963001834 active site residue [active] 208963001835 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 208963001836 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 208963001837 active site 208963001838 metal binding site [ion binding]; metal-binding site 208963001839 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 208963001840 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 208963001841 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 208963001842 S-adenosylmethionine binding site [chemical binding]; other site 208963001843 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 208963001844 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 208963001845 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 208963001846 SurA N-terminal domain; Region: SurA_N; pfam09312 208963001847 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 208963001848 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 208963001849 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 208963001850 OstA-like protein; Region: OstA; cl00844 208963001851 Organic solvent tolerance protein; Region: OstA_C; pfam04453 208963001852 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 208963001853 Phosphotransferase enzyme family; Region: APH; pfam01636 208963001854 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 208963001855 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 208963001856 Substrate binding site; other site 208963001857 metal-binding site 208963001858 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 208963001859 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 208963001860 putative metal binding site [ion binding]; other site 208963001861 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 208963001862 HSP70 interaction site [polypeptide binding]; other site 208963001863 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 208963001864 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 208963001865 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963001866 substrate binding pocket [chemical binding]; other site 208963001867 membrane-bound complex binding site; other site 208963001868 hinge residues; other site 208963001869 PAS domain S-box; Region: sensory_box; TIGR00229 208963001870 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 208963001871 putative active site [active] 208963001872 heme pocket [chemical binding]; other site 208963001873 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 208963001874 PAS fold; Region: PAS_3; pfam08447 208963001875 putative active site [active] 208963001876 heme pocket [chemical binding]; other site 208963001877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 208963001878 Histidine kinase; Region: HisKA_3; pfam07730 208963001879 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963001880 ATP binding site [chemical binding]; other site 208963001881 Mg2+ binding site [ion binding]; other site 208963001882 G-X-G motif; other site 208963001883 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963001884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963001885 active site 208963001886 phosphorylation site [posttranslational modification] 208963001887 intermolecular recognition site; other site 208963001888 dimerization interface [polypeptide binding]; other site 208963001889 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 208963001890 DNA binding residues [nucleotide binding] 208963001891 dimerization interface [polypeptide binding]; other site 208963001892 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 208963001893 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963001894 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 208963001895 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 208963001896 Walker A/P-loop; other site 208963001897 ATP binding site [chemical binding]; other site 208963001898 Q-loop/lid; other site 208963001899 ABC transporter signature motif; other site 208963001900 Walker B; other site 208963001901 D-loop; other site 208963001902 H-loop/switch region; other site 208963001903 Poxvirus L5 protein family; Region: Pox_L5; cl17406 208963001904 TOBE domain; Region: TOBE_2; pfam08402 208963001905 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 208963001906 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963001907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963001908 dimer interface [polypeptide binding]; other site 208963001909 conserved gate region; other site 208963001910 putative PBP binding loops; other site 208963001911 ABC-ATPase subunit interface; other site 208963001912 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 208963001913 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963001914 dimer interface [polypeptide binding]; other site 208963001915 conserved gate region; other site 208963001916 putative PBP binding loops; other site 208963001917 ABC-ATPase subunit interface; other site 208963001918 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 208963001919 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 208963001920 substrate binding site [chemical binding]; other site 208963001921 hexamer interface [polypeptide binding]; other site 208963001922 metal binding site [ion binding]; metal-binding site 208963001923 phosphoglycolate phosphatase; Provisional; Region: PRK13223 208963001924 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 208963001925 motif II; other site 208963001926 anthranilate synthase component I; Provisional; Region: PRK13565 208963001927 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 208963001928 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 208963001929 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 208963001930 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 208963001931 non-specific DNA binding site [nucleotide binding]; other site 208963001932 Predicted transcriptional regulator [Transcription]; Region: COG2932 208963001933 salt bridge; other site 208963001934 sequence-specific DNA binding site [nucleotide binding]; other site 208963001935 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 208963001936 Catalytic site [active] 208963001937 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 208963001938 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 208963001939 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 208963001940 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 208963001941 Phage-related baseplate assembly protein [General function prediction only]; Region: COG3948 208963001942 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 208963001943 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 208963001944 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 208963001945 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 208963001946 phage contractile tail tube protein, P2 family; Region: tail_tube; TIGR01611 208963001947 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 208963001948 Mu-like prophage protein [General function prediction only]; Region: COG3941 208963001949 Phage protein U [General function prediction only]; Region: COG3499 208963001950 P2-like prophage tail protein X [General function prediction only]; Region: COG5004 208963001951 Phage protein D [General function prediction only]; Region: COG3500 208963001952 Predicted chitinase [General function prediction only]; Region: COG3179 208963001953 catalytic residue [active] 208963001954 Phage-related minor tail protein [Function unknown]; Region: COG5281 208963001955 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 208963001956 Phage-related minor tail protein [Function unknown]; Region: COG5281 208963001957 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 208963001958 Phage-related protein [Function unknown]; Region: COG4718 208963001959 Phage-related protein [Function unknown]; Region: gp18; COG4672 208963001960 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 208963001961 MPN+ (JAMM) motif; other site 208963001962 Zinc-binding site [ion binding]; other site 208963001963 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 208963001964 NlpC/P60 family; Region: NLPC_P60; pfam00877 208963001965 Phage-related protein, tail component [Function unknown]; Region: COG4723 208963001966 Phage-related protein, tail component [Function unknown]; Region: COG4733 208963001967 Putative phage tail protein; Region: Phage-tail_3; pfam13550 208963001968 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 208963001969 Interdomain contacts; other site 208963001970 Cytokine receptor motif; other site 208963001971 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 208963001972 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 208963001973 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 208963001974 glutamine binding [chemical binding]; other site 208963001975 catalytic triad [active] 208963001976 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 208963001977 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 208963001978 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 208963001979 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 208963001980 active site 208963001981 ribulose/triose binding site [chemical binding]; other site 208963001982 phosphate binding site [ion binding]; other site 208963001983 substrate (anthranilate) binding pocket [chemical binding]; other site 208963001984 product (indole) binding pocket [chemical binding]; other site 208963001985 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 208963001986 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 208963001987 ligand binding site [chemical binding]; other site 208963001988 flexible hinge region; other site 208963001989 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 208963001990 putative switch regulator; other site 208963001991 non-specific DNA interactions [nucleotide binding]; other site 208963001992 DNA binding site [nucleotide binding] 208963001993 sequence specific DNA binding site [nucleotide binding]; other site 208963001994 putative cAMP binding site [chemical binding]; other site 208963001995 OsmC-like protein; Region: OsmC; cl00767 208963001996 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 208963001997 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 208963001998 diiron binding motif [ion binding]; other site 208963001999 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 208963002000 nucleotide binding site/active site [active] 208963002001 HIT family signature motif; other site 208963002002 catalytic residue [active] 208963002003 Ycf46; Provisional; Region: ycf46; CHL00195 208963002004 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 208963002005 Walker A motif; other site 208963002006 ATP binding site [chemical binding]; other site 208963002007 Walker B motif; other site 208963002008 arginine finger; other site 208963002009 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 208963002010 classical (c) SDRs; Region: SDR_c; cd05233 208963002011 NAD(P) binding site [chemical binding]; other site 208963002012 active site 208963002013 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 208963002014 Predicted membrane protein [Function unknown]; Region: COG3152 208963002015 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 208963002016 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 208963002017 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 208963002018 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 208963002019 FMN binding site [chemical binding]; other site 208963002020 substrate binding site [chemical binding]; other site 208963002021 putative catalytic residue [active] 208963002022 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 208963002023 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 208963002024 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 208963002025 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 208963002026 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 208963002027 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 208963002028 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 208963002029 putative peptidase; Provisional; Region: PRK11649 208963002030 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 208963002031 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963002032 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 208963002033 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 208963002034 active site 208963002035 HIGH motif; other site 208963002036 dimer interface [polypeptide binding]; other site 208963002037 KMSKS motif; other site 208963002038 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 208963002039 Biotin operon repressor [Transcription]; Region: BirA; COG1654 208963002040 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 208963002041 pantothenate kinase; Reviewed; Region: PRK13322 208963002042 Sporulation related domain; Region: SPOR; pfam05036 208963002043 Sporulation related domain; Region: SPOR; pfam05036 208963002044 elongation factor Tu; Reviewed; Region: PRK00049 208963002045 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 208963002046 G1 box; other site 208963002047 GEF interaction site [polypeptide binding]; other site 208963002048 GTP/Mg2+ binding site [chemical binding]; other site 208963002049 Switch I region; other site 208963002050 G2 box; other site 208963002051 G3 box; other site 208963002052 Switch II region; other site 208963002053 G4 box; other site 208963002054 G5 box; other site 208963002055 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 208963002056 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 208963002057 Antibiotic Binding Site [chemical binding]; other site 208963002058 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 208963002059 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 208963002060 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 208963002061 putative homodimer interface [polypeptide binding]; other site 208963002062 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 208963002063 heterodimer interface [polypeptide binding]; other site 208963002064 homodimer interface [polypeptide binding]; other site 208963002065 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 208963002066 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 208963002067 23S rRNA interface [nucleotide binding]; other site 208963002068 L7/L12 interface [polypeptide binding]; other site 208963002069 putative thiostrepton binding site; other site 208963002070 L25 interface [polypeptide binding]; other site 208963002071 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 208963002072 mRNA/rRNA interface [nucleotide binding]; other site 208963002073 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 208963002074 23S rRNA interface [nucleotide binding]; other site 208963002075 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 208963002076 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 208963002077 core dimer interface [polypeptide binding]; other site 208963002078 peripheral dimer interface [polypeptide binding]; other site 208963002079 L10 interface [polypeptide binding]; other site 208963002080 L11 interface [polypeptide binding]; other site 208963002081 putative EF-Tu interaction site [polypeptide binding]; other site 208963002082 putative EF-G interaction site [polypeptide binding]; other site 208963002083 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 208963002084 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 208963002085 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 208963002086 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 208963002087 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 208963002088 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 208963002089 RPB3 interaction site [polypeptide binding]; other site 208963002090 RPB1 interaction site [polypeptide binding]; other site 208963002091 RPB11 interaction site [polypeptide binding]; other site 208963002092 RPB10 interaction site [polypeptide binding]; other site 208963002093 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 208963002094 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 208963002095 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 208963002096 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 208963002097 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 208963002098 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 208963002099 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 208963002100 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 208963002101 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 208963002102 DNA binding site [nucleotide binding] 208963002103 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 208963002104 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 208963002105 S17 interaction site [polypeptide binding]; other site 208963002106 S8 interaction site; other site 208963002107 16S rRNA interaction site [nucleotide binding]; other site 208963002108 streptomycin interaction site [chemical binding]; other site 208963002109 23S rRNA interaction site [nucleotide binding]; other site 208963002110 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 208963002111 30S ribosomal protein S7; Validated; Region: PRK05302 208963002112 elongation factor G; Reviewed; Region: PRK00007 208963002113 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 208963002114 G1 box; other site 208963002115 putative GEF interaction site [polypeptide binding]; other site 208963002116 GTP/Mg2+ binding site [chemical binding]; other site 208963002117 Switch I region; other site 208963002118 G2 box; other site 208963002119 G3 box; other site 208963002120 Switch II region; other site 208963002121 G4 box; other site 208963002122 G5 box; other site 208963002123 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 208963002124 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 208963002125 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 208963002126 elongation factor Tu; Reviewed; Region: PRK00049 208963002127 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 208963002128 G1 box; other site 208963002129 GEF interaction site [polypeptide binding]; other site 208963002130 GTP/Mg2+ binding site [chemical binding]; other site 208963002131 Switch I region; other site 208963002132 G2 box; other site 208963002133 G3 box; other site 208963002134 Switch II region; other site 208963002135 G4 box; other site 208963002136 G5 box; other site 208963002137 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 208963002138 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 208963002139 Antibiotic Binding Site [chemical binding]; other site 208963002140 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 208963002141 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 208963002142 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 208963002143 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 208963002144 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 208963002145 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 208963002146 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 208963002147 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 208963002148 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 208963002149 protein-rRNA interface [nucleotide binding]; other site 208963002150 putative translocon binding site; other site 208963002151 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 208963002152 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 208963002153 G-X-X-G motif; other site 208963002154 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 208963002155 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 208963002156 23S rRNA interface [nucleotide binding]; other site 208963002157 5S rRNA interface [nucleotide binding]; other site 208963002158 putative antibiotic binding site [chemical binding]; other site 208963002159 L25 interface [polypeptide binding]; other site 208963002160 L27 interface [polypeptide binding]; other site 208963002161 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 208963002162 23S rRNA interface [nucleotide binding]; other site 208963002163 putative translocon interaction site; other site 208963002164 signal recognition particle (SRP54) interaction site; other site 208963002165 L23 interface [polypeptide binding]; other site 208963002166 trigger factor interaction site; other site 208963002167 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 208963002168 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 208963002169 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 208963002170 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 208963002171 RNA binding site [nucleotide binding]; other site 208963002172 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 208963002173 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 208963002174 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 208963002175 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 208963002176 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 208963002177 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 208963002178 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 208963002179 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 208963002180 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 208963002181 5S rRNA interface [nucleotide binding]; other site 208963002182 23S rRNA interface [nucleotide binding]; other site 208963002183 L5 interface [polypeptide binding]; other site 208963002184 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 208963002185 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 208963002186 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 208963002187 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 208963002188 23S rRNA binding site [nucleotide binding]; other site 208963002189 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 208963002190 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 208963002191 SecY translocase; Region: SecY; pfam00344 208963002192 Ribosomal protein L36 [Translation, ribosomal structure and biogenesis]; Region: RpmJ; COG0257 208963002193 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 208963002194 30S ribosomal protein S13; Region: bact_S13; TIGR03631 208963002195 30S ribosomal protein S11; Validated; Region: PRK05309 208963002196 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 208963002197 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 208963002198 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 208963002199 RNA binding surface [nucleotide binding]; other site 208963002200 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 208963002201 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 208963002202 alphaNTD homodimer interface [polypeptide binding]; other site 208963002203 alphaNTD - beta interaction site [polypeptide binding]; other site 208963002204 alphaNTD - beta' interaction site [polypeptide binding]; other site 208963002205 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 208963002206 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 208963002207 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 208963002208 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 208963002209 tetramer interface [polypeptide binding]; other site 208963002210 heme binding pocket [chemical binding]; other site 208963002211 NADPH binding site [chemical binding]; other site 208963002212 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 208963002213 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 208963002214 heme binding site [chemical binding]; other site 208963002215 ferroxidase pore; other site 208963002216 ferroxidase diiron center [ion binding]; other site 208963002217 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 208963002218 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 208963002219 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 208963002220 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 208963002221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963002222 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963002223 putative substrate translocation pore; other site 208963002224 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 208963002225 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 208963002226 dimer interface [polypeptide binding]; other site 208963002227 ssDNA binding site [nucleotide binding]; other site 208963002228 tetramer (dimer of dimers) interface [polypeptide binding]; other site 208963002229 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 208963002230 isochorismate synthases; Region: isochor_syn; TIGR00543 208963002231 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 208963002232 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 208963002233 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 208963002234 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 208963002235 acyl-activating enzyme (AAE) consensus motif; other site 208963002236 active site 208963002237 AMP binding site [chemical binding]; other site 208963002238 substrate binding site [chemical binding]; other site 208963002239 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963002240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963002241 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 208963002242 Condensation domain; Region: Condensation; pfam00668 208963002243 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963002244 Nonribosomal peptide synthase; Region: NRPS; pfam08415 208963002245 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 208963002246 acyl-activating enzyme (AAE) consensus motif; other site 208963002247 AMP binding site [chemical binding]; other site 208963002248 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963002249 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963002250 Condensation domain; Region: Condensation; pfam00668 208963002251 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963002252 Nonribosomal peptide synthase; Region: NRPS; pfam08415 208963002253 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 208963002254 acyl-activating enzyme (AAE) consensus motif; other site 208963002255 AMP binding site [chemical binding]; other site 208963002256 Methyltransferase domain; Region: Methyltransf_12; pfam08242 208963002257 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963002258 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963002259 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 208963002260 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 208963002261 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 208963002262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963002263 Walker A/P-loop; other site 208963002264 ATP binding site [chemical binding]; other site 208963002265 Q-loop/lid; other site 208963002266 ABC transporter signature motif; other site 208963002267 Walker B; other site 208963002268 D-loop; other site 208963002269 H-loop/switch region; other site 208963002270 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 208963002271 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 208963002272 Walker A/P-loop; other site 208963002273 ATP binding site [chemical binding]; other site 208963002274 Q-loop/lid; other site 208963002275 ABC transporter signature motif; other site 208963002276 Walker B; other site 208963002277 D-loop; other site 208963002278 H-loop/switch region; other site 208963002279 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 208963002280 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 208963002281 N-terminal plug; other site 208963002282 ligand-binding site [chemical binding]; other site 208963002283 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 208963002284 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 208963002285 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 208963002286 hypothetical protein; Provisional; Region: PRK07538 208963002287 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 208963002288 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 208963002289 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 208963002290 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 208963002291 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 208963002292 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 208963002293 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 208963002294 Glutamine amidotransferase class-I; Region: GATase; pfam00117 208963002295 glutamine binding [chemical binding]; other site 208963002296 catalytic triad [active] 208963002297 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 208963002298 hydrophobic substrate binding pocket; other site 208963002299 Isochorismatase family; Region: Isochorismatase; pfam00857 208963002300 active site 208963002301 conserved cis-peptide bond; other site 208963002302 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 208963002303 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 208963002304 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 208963002305 O-methyltransferase; Region: Methyltransf_2; pfam00891 208963002306 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963002307 multidrug efflux protein; Reviewed; Region: PRK09579 208963002308 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963002309 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963002310 Predicted membrane protein [Function unknown]; Region: COG2259 208963002311 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 208963002312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963002313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963002314 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 208963002315 dimerization interface [polypeptide binding]; other site 208963002316 Nitronate monooxygenase; Region: NMO; pfam03060 208963002317 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 208963002318 FMN binding site [chemical binding]; other site 208963002319 substrate binding site [chemical binding]; other site 208963002320 putative catalytic residue [active] 208963002321 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 208963002322 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 208963002323 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963002324 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 208963002325 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 208963002326 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 208963002327 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963002328 active site 208963002329 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 208963002330 acyl-CoA synthetase; Validated; Region: PRK08162 208963002331 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 208963002332 acyl-activating enzyme (AAE) consensus motif; other site 208963002333 putative active site [active] 208963002334 AMP binding site [chemical binding]; other site 208963002335 putative CoA binding site [chemical binding]; other site 208963002336 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 208963002337 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 208963002338 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 208963002339 putative active site [active] 208963002340 heme pocket [chemical binding]; other site 208963002341 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 208963002342 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 208963002343 putative active site [active] 208963002344 heme pocket [chemical binding]; other site 208963002345 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 208963002346 dimer interface [polypeptide binding]; other site 208963002347 phosphorylation site [posttranslational modification] 208963002348 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963002349 ATP binding site [chemical binding]; other site 208963002350 Mg2+ binding site [ion binding]; other site 208963002351 G-X-G motif; other site 208963002352 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 208963002353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963002354 active site 208963002355 phosphorylation site [posttranslational modification] 208963002356 intermolecular recognition site; other site 208963002357 dimerization interface [polypeptide binding]; other site 208963002358 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 208963002359 DNA binding residues [nucleotide binding] 208963002360 dimerization interface [polypeptide binding]; other site 208963002361 putative monooxygenase; Reviewed; Region: PRK07045 208963002362 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 208963002363 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 208963002364 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 208963002365 NAD(P) binding site [chemical binding]; other site 208963002366 catalytic residues [active] 208963002367 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 208963002368 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 208963002369 inhibitor site; inhibition site 208963002370 active site 208963002371 dimer interface [polypeptide binding]; other site 208963002372 catalytic residue [active] 208963002373 benzoate transport; Region: 2A0115; TIGR00895 208963002374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963002375 putative substrate translocation pore; other site 208963002376 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963002377 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963002378 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 208963002379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963002380 DNA-binding site [nucleotide binding]; DNA binding site 208963002381 FCD domain; Region: FCD; pfam07729 208963002382 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 208963002383 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 208963002384 conserved cys residue [active] 208963002385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963002386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963002387 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 208963002388 active site 208963002389 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 208963002390 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 208963002391 B3/4 domain; Region: B3_4; pfam03483 208963002392 acetolactate synthase; Reviewed; Region: PRK08322 208963002393 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 208963002394 PYR/PP interface [polypeptide binding]; other site 208963002395 dimer interface [polypeptide binding]; other site 208963002396 TPP binding site [chemical binding]; other site 208963002397 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963002398 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 208963002399 TPP-binding site [chemical binding]; other site 208963002400 dimer interface [polypeptide binding]; other site 208963002401 outer membrane porin, OprD family; Region: OprD; pfam03573 208963002402 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 208963002403 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 208963002404 S-adenosylmethionine binding site [chemical binding]; other site 208963002405 Uncharacterized conserved protein [Function unknown]; Region: COG3791 208963002406 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 208963002407 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 208963002408 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963002409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963002410 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 208963002411 putative effector binding pocket; other site 208963002412 putative dimerization interface [polypeptide binding]; other site 208963002413 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 208963002414 homotrimer interaction site [polypeptide binding]; other site 208963002415 putative active site [active] 208963002416 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 208963002417 putative catalytic site [active] 208963002418 putative phosphate binding site [ion binding]; other site 208963002419 active site 208963002420 metal binding site A [ion binding]; metal-binding site 208963002421 DNA binding site [nucleotide binding] 208963002422 putative AP binding site [nucleotide binding]; other site 208963002423 putative metal binding site B [ion binding]; other site 208963002424 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 208963002425 intracellular protease, PfpI family; Region: PfpI; TIGR01382 208963002426 proposed catalytic triad [active] 208963002427 conserved cys residue [active] 208963002428 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 208963002429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 208963002430 Predicted transcriptional regulator [Transcription]; Region: COG1959 208963002431 Transcriptional regulator; Region: Rrf2; pfam02082 208963002432 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 208963002433 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 208963002434 N-terminal plug; other site 208963002435 ligand-binding site [chemical binding]; other site 208963002436 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 208963002437 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963002438 active site 208963002439 catalytic tetrad [active] 208963002440 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963002441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963002442 Coenzyme A binding pocket [chemical binding]; other site 208963002443 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 208963002444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963002445 DNA-binding site [nucleotide binding]; DNA binding site 208963002446 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 208963002447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963002448 homodimer interface [polypeptide binding]; other site 208963002449 catalytic residue [active] 208963002450 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 208963002451 putative active site pocket [active] 208963002452 dimerization interface [polypeptide binding]; other site 208963002453 putative catalytic residue [active] 208963002454 amidase; Validated; Region: PRK06565 208963002455 Amidase; Region: Amidase; cl11426 208963002456 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 208963002457 SnoaL-like domain; Region: SnoaL_3; pfam13474 208963002458 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 208963002459 Quinone oxidoreductase (QOR); Region: quinone_oxidoreductase_like_1; cd08243 208963002460 putative NAD(P) binding site [chemical binding]; other site 208963002461 SnoaL-like domain; Region: SnoaL_3; pfam13474 208963002462 SnoaL-like domain; Region: SnoaL_2; pfam12680 208963002463 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963002464 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963002465 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 208963002466 putative effector binding pocket; other site 208963002467 dimerization interface [polypeptide binding]; other site 208963002468 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963002469 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963002470 putative substrate translocation pore; other site 208963002471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963002472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963002473 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 208963002474 putative effector binding pocket; other site 208963002475 putative dimerization interface [polypeptide binding]; other site 208963002476 short chain dehydrogenase; Provisional; Region: PRK07577 208963002477 classical (c) SDRs; Region: SDR_c; cd05233 208963002478 NAD(P) binding site [chemical binding]; other site 208963002479 active site 208963002480 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 208963002481 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 208963002482 ABC-ATPase subunit interface; other site 208963002483 dimer interface [polypeptide binding]; other site 208963002484 putative PBP binding regions; other site 208963002485 FecCD transport family; Region: FecCD; pfam01032 208963002486 ABC-ATPase subunit interface; other site 208963002487 dimer interface [polypeptide binding]; other site 208963002488 putative PBP binding regions; other site 208963002489 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 208963002490 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 208963002491 siderophore binding site; other site 208963002492 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 208963002493 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 208963002494 Walker A/P-loop; other site 208963002495 ATP binding site [chemical binding]; other site 208963002496 Q-loop/lid; other site 208963002497 ABC transporter signature motif; other site 208963002498 Walker B; other site 208963002499 D-loop; other site 208963002500 H-loop/switch region; other site 208963002501 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 208963002502 Transcriptional regulator [Transcription]; Region: IclR; COG1414 208963002503 Bacterial transcriptional regulator; Region: IclR; pfam01614 208963002504 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963002505 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 208963002506 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 208963002507 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 208963002508 active site 208963002509 non-prolyl cis peptide bond; other site 208963002510 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 208963002511 Bacterial SH3 domain; Region: SH3_3; pfam08239 208963002512 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 208963002513 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 208963002514 putative NAD(P) binding site [chemical binding]; other site 208963002515 catalytic Zn binding site [ion binding]; other site 208963002516 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 208963002517 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 208963002518 E3 interaction surface; other site 208963002519 lipoyl attachment site [posttranslational modification]; other site 208963002520 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 208963002521 nucleophilic elbow; other site 208963002522 catalytic triad; other site 208963002523 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 208963002524 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 208963002525 alpha subunit interface [polypeptide binding]; other site 208963002526 TPP binding site [chemical binding]; other site 208963002527 heterodimer interface [polypeptide binding]; other site 208963002528 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 208963002529 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 208963002530 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 208963002531 tetramer interface [polypeptide binding]; other site 208963002532 TPP-binding site [chemical binding]; other site 208963002533 heterodimer interface [polypeptide binding]; other site 208963002534 phosphorylation loop region [posttranslational modification] 208963002535 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 208963002536 ATP-NAD kinase; Region: NAD_kinase; pfam01513 208963002537 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963002538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963002539 NAD(P) binding site [chemical binding]; other site 208963002540 active site 208963002541 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 208963002542 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 208963002543 Walker A motif; other site 208963002544 ATP binding site [chemical binding]; other site 208963002545 Walker B motif; other site 208963002546 arginine finger; other site 208963002547 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963002548 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963002549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963002550 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 208963002551 putative effector binding pocket; other site 208963002552 dimerization interface [polypeptide binding]; other site 208963002553 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963002554 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 208963002555 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 208963002556 putative active site [active] 208963002557 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963002558 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 208963002559 Walker A/P-loop; other site 208963002560 ATP binding site [chemical binding]; other site 208963002561 Q-loop/lid; other site 208963002562 ABC transporter signature motif; other site 208963002563 Walker B; other site 208963002564 D-loop; other site 208963002565 H-loop/switch region; other site 208963002566 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 208963002567 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963002568 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963002569 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 208963002570 FAD binding domain; Region: FAD_binding_4; pfam01565 208963002571 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 208963002572 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 208963002573 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 208963002574 active site 208963002575 HIGH motif; other site 208963002576 dimer interface [polypeptide binding]; other site 208963002577 KMSKS motif; other site 208963002578 outer membrane porin, OprD family; Region: OprD; pfam03573 208963002579 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 208963002580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963002581 putative substrate translocation pore; other site 208963002582 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 208963002583 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 208963002584 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 208963002585 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 208963002586 Low-spin heme binding site [chemical binding]; other site 208963002587 Putative water exit pathway; other site 208963002588 Binuclear center (active site) [active] 208963002589 Putative proton exit pathway; other site 208963002590 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 208963002591 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963002592 DNA-binding site [nucleotide binding]; DNA binding site 208963002593 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 208963002594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963002595 homodimer interface [polypeptide binding]; other site 208963002596 catalytic residue [active] 208963002597 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 208963002598 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 208963002599 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 208963002600 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 208963002601 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 208963002602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 208963002603 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 208963002604 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 208963002605 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 208963002606 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963002607 putative substrate translocation pore; other site 208963002608 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 208963002609 putative substrate binding pocket [chemical binding]; other site 208963002610 trimer interface [polypeptide binding]; other site 208963002611 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 208963002612 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 208963002613 putative active site [active] 208963002614 putative metal binding site [ion binding]; other site 208963002615 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 208963002616 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 208963002617 NAD binding site [chemical binding]; other site 208963002618 catalytic residues [active] 208963002619 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 208963002620 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 208963002621 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 208963002622 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 208963002623 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 208963002624 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963002625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963002626 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 208963002627 Phosphotransferase enzyme family; Region: APH; pfam01636 208963002628 active site 208963002629 ATP binding site [chemical binding]; other site 208963002630 antibiotic binding site [chemical binding]; other site 208963002631 Predicted periplasmic protein [Function unknown]; Region: COG3904 208963002632 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 208963002633 GAF domain; Region: GAF; pfam01590 208963002634 Phytochrome region; Region: PHY; pfam00360 208963002635 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 208963002636 dimer interface [polypeptide binding]; other site 208963002637 phosphorylation site [posttranslational modification] 208963002638 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963002639 ATP binding site [chemical binding]; other site 208963002640 Mg2+ binding site [ion binding]; other site 208963002641 G-X-G motif; other site 208963002642 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 208963002643 heme binding pocket [chemical binding]; other site 208963002644 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 208963002645 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 208963002646 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963002647 Coenzyme A binding pocket [chemical binding]; other site 208963002648 putative arabinose transporter; Provisional; Region: PRK03545 208963002649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963002650 putative substrate translocation pore; other site 208963002651 CHASE domain; Region: CHASE; cl01369 208963002652 PAS domain S-box; Region: sensory_box; TIGR00229 208963002653 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 208963002654 putative active site [active] 208963002655 heme pocket [chemical binding]; other site 208963002656 PAS domain; Region: PAS_9; pfam13426 208963002657 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 208963002658 putative active site [active] 208963002659 heme pocket [chemical binding]; other site 208963002660 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 208963002661 PAS fold; Region: PAS_3; pfam08447 208963002662 putative active site [active] 208963002663 heme pocket [chemical binding]; other site 208963002664 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 208963002665 dimer interface [polypeptide binding]; other site 208963002666 phosphorylation site [posttranslational modification] 208963002667 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963002668 ATP binding site [chemical binding]; other site 208963002669 Mg2+ binding site [ion binding]; other site 208963002670 G-X-G motif; other site 208963002671 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963002672 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963002673 active site 208963002674 phosphorylation site [posttranslational modification] 208963002675 intermolecular recognition site; other site 208963002676 dimerization interface [polypeptide binding]; other site 208963002677 Response regulator receiver domain; Region: Response_reg; pfam00072 208963002678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963002679 active site 208963002680 phosphorylation site [posttranslational modification] 208963002681 intermolecular recognition site; other site 208963002682 dimerization interface [polypeptide binding]; other site 208963002683 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 208963002684 putative binding surface; other site 208963002685 active site 208963002686 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 208963002687 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 208963002688 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963002689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963002690 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 208963002691 putative dimerization interface [polypeptide binding]; other site 208963002692 putative substrate binding pocket [chemical binding]; other site 208963002693 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 208963002694 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 208963002695 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963002696 Zn2+ binding site [ion binding]; other site 208963002697 Mg2+ binding site [ion binding]; other site 208963002698 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963002699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963002700 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 208963002701 dimerization interface [polypeptide binding]; other site 208963002702 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 208963002703 classical (c) SDRs; Region: SDR_c; cd05233 208963002704 NAD(P) binding site [chemical binding]; other site 208963002705 active site 208963002706 choline dehydrogenase; Validated; Region: PRK02106 208963002707 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 208963002708 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 208963002709 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963002710 classical (c) SDRs; Region: SDR_c; cd05233 208963002711 NAD(P) binding site [chemical binding]; other site 208963002712 active site 208963002713 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 208963002714 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 208963002715 putative NAD(P) binding site [chemical binding]; other site 208963002716 catalytic Zn binding site [ion binding]; other site 208963002717 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963002718 D-galactonate transporter; Region: 2A0114; TIGR00893 208963002719 putative substrate translocation pore; other site 208963002720 Cupin domain; Region: Cupin_2; pfam07883 208963002721 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963002722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963002723 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 208963002724 CoenzymeA binding site [chemical binding]; other site 208963002725 subunit interaction site [polypeptide binding]; other site 208963002726 PHB binding site; other site 208963002727 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 208963002728 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 208963002729 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 208963002730 hydrophobic ligand binding site; other site 208963002731 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 208963002732 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 208963002733 FMN-binding pocket [chemical binding]; other site 208963002734 flavin binding motif; other site 208963002735 phosphate binding motif [ion binding]; other site 208963002736 beta-alpha-beta structure motif; other site 208963002737 NAD binding pocket [chemical binding]; other site 208963002738 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 208963002739 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 208963002740 catalytic loop [active] 208963002741 iron binding site [ion binding]; other site 208963002742 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963002743 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 208963002744 DNA binding residues [nucleotide binding] 208963002745 dimerization interface [polypeptide binding]; other site 208963002746 Flavin Reductases; Region: FlaRed; cl00801 208963002747 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 208963002748 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 208963002749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 208963002750 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 208963002751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963002752 NAD(P) binding site [chemical binding]; other site 208963002753 active site 208963002754 aminotransferase; Validated; Region: PRK07046 208963002755 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 208963002756 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963002757 catalytic residue [active] 208963002758 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 208963002759 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 208963002760 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 208963002761 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963002762 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 208963002763 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 208963002764 PapC N-terminal domain; Region: PapC_N; pfam13954 208963002765 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 208963002766 PapC C-terminal domain; Region: PapC_C; pfam13953 208963002767 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963002768 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 208963002769 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 208963002770 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 208963002771 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 208963002772 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 208963002773 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963002774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963002775 active site 208963002776 phosphorylation site [posttranslational modification] 208963002777 intermolecular recognition site; other site 208963002778 dimerization interface [polypeptide binding]; other site 208963002779 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 208963002780 DNA binding residues [nucleotide binding] 208963002781 dimerization interface [polypeptide binding]; other site 208963002782 short chain dehydrogenase; Provisional; Region: PRK08177 208963002783 NAD(P) binding site [chemical binding]; other site 208963002784 active site 208963002785 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963002786 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 208963002787 acyl-activating enzyme (AAE) consensus motif; other site 208963002788 AMP binding site [chemical binding]; other site 208963002789 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963002790 Putative dehydrogenase domain of multifunctional non-ribosomal peptide synthetases and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3320 208963002791 Male sterility protein; Region: NAD_binding_4; pfam07993 208963002792 NAD(P) binding site [chemical binding]; other site 208963002793 active site 208963002794 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 208963002795 non-specific DNA binding site [nucleotide binding]; other site 208963002796 salt bridge; other site 208963002797 sequence-specific DNA binding site [nucleotide binding]; other site 208963002798 Methyltransferase domain; Region: Methyltransf_11; pfam08241 208963002799 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 208963002800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963002801 DNA binding residues [nucleotide binding] 208963002802 dimerization interface [polypeptide binding]; other site 208963002803 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 208963002804 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 208963002805 NAD(P) binding site [chemical binding]; other site 208963002806 catalytic residues [active] 208963002807 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 208963002808 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 208963002809 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 208963002810 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963002811 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 208963002812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963002813 NAD(P) binding site [chemical binding]; other site 208963002814 active site 208963002815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963002816 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 208963002817 NAD(P) binding site [chemical binding]; other site 208963002818 active site 208963002819 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 208963002820 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 208963002821 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 208963002822 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 208963002823 FtsX-like permease family; Region: FtsX; pfam02687 208963002824 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 208963002825 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 208963002826 Walker A/P-loop; other site 208963002827 ATP binding site [chemical binding]; other site 208963002828 Q-loop/lid; other site 208963002829 ABC transporter signature motif; other site 208963002830 Walker B; other site 208963002831 D-loop; other site 208963002832 H-loop/switch region; other site 208963002833 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 208963002834 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 208963002835 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 208963002836 Predicted methyltransferase [General function prediction only]; Region: COG3897 208963002837 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 208963002838 S-adenosylmethionine binding site [chemical binding]; other site 208963002839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 208963002840 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 208963002841 ATP cone domain; Region: ATP-cone; pfam03477 208963002842 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 208963002843 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 208963002844 catalytic motif [active] 208963002845 Zn binding site [ion binding]; other site 208963002846 RibD C-terminal domain; Region: RibD_C; cl17279 208963002847 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 208963002848 Lumazine binding domain; Region: Lum_binding; pfam00677 208963002849 Lumazine binding domain; Region: Lum_binding; pfam00677 208963002850 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 208963002851 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 208963002852 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 208963002853 dimerization interface [polypeptide binding]; other site 208963002854 active site 208963002855 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 208963002856 homopentamer interface [polypeptide binding]; other site 208963002857 active site 208963002858 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 208963002859 thiamine monophosphate kinase; Provisional; Region: PRK05731 208963002860 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 208963002861 ATP binding site [chemical binding]; other site 208963002862 dimerization interface [polypeptide binding]; other site 208963002863 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 208963002864 tetramer interfaces [polypeptide binding]; other site 208963002865 binuclear metal-binding site [ion binding]; other site 208963002866 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963002867 Predicted aspartyl protease [General function prediction only]; Region: COG3577 208963002868 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 208963002869 catalytic motif [active] 208963002870 Catalytic residue [active] 208963002871 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 208963002872 dimerization interface [polypeptide binding]; other site 208963002873 active site 208963002874 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 208963002875 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 208963002876 cobalamin binding residues [chemical binding]; other site 208963002877 putative BtuC binding residues; other site 208963002878 dimer interface [polypeptide binding]; other site 208963002879 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 208963002880 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 208963002881 TPP-binding site; other site 208963002882 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 208963002883 PYR/PP interface [polypeptide binding]; other site 208963002884 dimer interface [polypeptide binding]; other site 208963002885 TPP binding site [chemical binding]; other site 208963002886 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 208963002887 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 208963002888 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 208963002889 substrate binding pocket [chemical binding]; other site 208963002890 chain length determination region; other site 208963002891 substrate-Mg2+ binding site; other site 208963002892 catalytic residues [active] 208963002893 aspartate-rich region 1; other site 208963002894 active site lid residues [active] 208963002895 aspartate-rich region 2; other site 208963002896 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 208963002897 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 208963002898 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 208963002899 putative active site pocket [active] 208963002900 metal binding site [ion binding]; metal-binding site 208963002901 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 208963002902 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 208963002903 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 208963002904 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 208963002905 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 208963002906 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 208963002907 Walker A/P-loop; other site 208963002908 ATP binding site [chemical binding]; other site 208963002909 Q-loop/lid; other site 208963002910 ABC transporter signature motif; other site 208963002911 Walker B; other site 208963002912 D-loop; other site 208963002913 H-loop/switch region; other site 208963002914 CHASE2 domain; Region: CHASE2; pfam05226 208963002915 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 208963002916 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 208963002917 PAS domain; Region: PAS; smart00091 208963002918 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 208963002919 dimer interface [polypeptide binding]; other site 208963002920 phosphorylation site [posttranslational modification] 208963002921 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963002922 ATP binding site [chemical binding]; other site 208963002923 Mg2+ binding site [ion binding]; other site 208963002924 G-X-G motif; other site 208963002925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 208963002926 FecR protein; Region: FecR; pfam04773 208963002927 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 208963002928 amphipathic channel; other site 208963002929 Asn-Pro-Ala signature motifs; other site 208963002930 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963002931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963002932 active site 208963002933 phosphorylation site [posttranslational modification] 208963002934 intermolecular recognition site; other site 208963002935 dimerization interface [polypeptide binding]; other site 208963002936 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 208963002937 DNA binding site [nucleotide binding] 208963002938 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 208963002939 dimer interface [polypeptide binding]; other site 208963002940 substrate binding site [chemical binding]; other site 208963002941 metal binding sites [ion binding]; metal-binding site 208963002942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3228 208963002943 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 208963002944 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 208963002945 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 208963002946 substrate binding site [chemical binding]; other site 208963002947 activation loop (A-loop); other site 208963002948 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963002949 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 208963002950 substrate binding pocket [chemical binding]; other site 208963002951 membrane-bound complex binding site; other site 208963002952 hinge residues; other site 208963002953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963002954 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 208963002955 Coenzyme A binding pocket [chemical binding]; other site 208963002956 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 208963002957 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 208963002958 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 208963002959 ethanolamine permease; Region: 2A0305; TIGR00908 208963002960 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 208963002961 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 208963002962 NAD(P) binding site [chemical binding]; other site 208963002963 catalytic residues [active] 208963002964 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 208963002965 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 208963002966 putative active site [active] 208963002967 heme pocket [chemical binding]; other site 208963002968 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 208963002969 Walker A motif; other site 208963002970 ATP binding site [chemical binding]; other site 208963002971 Walker B motif; other site 208963002972 arginine finger; other site 208963002973 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963002974 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 208963002975 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 208963002976 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 208963002977 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 208963002978 aromatic acid decarboxylase; Validated; Region: PRK05920 208963002979 Flavoprotein; Region: Flavoprotein; pfam02441 208963002980 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5645 208963002981 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 208963002982 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 208963002983 NAD binding site [chemical binding]; other site 208963002984 active site 208963002985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 208963002986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 208963002987 MORN repeat; Region: MORN; cl14787 208963002988 Peptidase C13 family; Region: Peptidase_C13; pfam01650 208963002989 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 208963002990 putative active site [active] 208963002991 putative catalytic site [active] 208963002992 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 208963002993 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 208963002994 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 208963002995 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 208963002996 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 208963002997 active site 208963002998 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 208963002999 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 208963003000 active site 208963003001 DNA binding site [nucleotide binding] 208963003002 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 208963003003 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 208963003004 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963003005 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 208963003006 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 208963003007 putative catalytic cysteine [active] 208963003008 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 208963003009 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 208963003010 active site 208963003011 (T/H)XGH motif; other site 208963003012 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 208963003013 Uncharacterized conserved protein [Function unknown]; Region: COG1576 208963003014 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 208963003015 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 208963003016 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 208963003017 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 208963003018 Transglycosylase SLT domain; Region: SLT_2; pfam13406 208963003019 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 208963003020 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963003021 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 208963003022 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 208963003023 Sporulation related domain; Region: SPOR; pfam05036 208963003024 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 208963003025 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 208963003026 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 208963003027 hypothetical protein; Provisional; Region: PRK00341 208963003028 lipoate-protein ligase B; Provisional; Region: PRK14342 208963003029 lipoyl synthase; Provisional; Region: PRK05481 208963003030 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 208963003031 FeS/SAM binding site; other site 208963003032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963003033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963003034 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 208963003035 dimerization interface [polypeptide binding]; other site 208963003036 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963003037 Transglycosylase SLT domain; Region: SLT_2; pfam13406 208963003038 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 208963003039 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963003040 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 208963003041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 208963003042 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 208963003043 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 208963003044 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 208963003045 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 208963003046 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 208963003047 HIGH motif; other site 208963003048 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 208963003049 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 208963003050 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 208963003051 active site 208963003052 KMSKS motif; other site 208963003053 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 208963003054 tRNA binding surface [nucleotide binding]; other site 208963003055 Uncharacterized conserved protein [Function unknown]; Region: COG1434 208963003056 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 208963003057 putative active site [active] 208963003058 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 208963003059 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 208963003060 putative active site [active] 208963003061 catalytic triad [active] 208963003062 putative dimer interface [polypeptide binding]; other site 208963003063 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 208963003064 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 208963003065 Transporter associated domain; Region: CorC_HlyC; smart01091 208963003066 metal-binding heat shock protein; Provisional; Region: PRK00016 208963003067 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 208963003068 PhoH-like protein; Region: PhoH; pfam02562 208963003069 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 208963003070 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 208963003071 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 208963003072 FeS/SAM binding site; other site 208963003073 TRAM domain; Region: TRAM; pfam01938 208963003074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4517 208963003075 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963003076 Sel1-like repeats; Region: SEL1; smart00671 208963003077 Sel1-like repeats; Region: SEL1; smart00671 208963003078 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 208963003079 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 208963003080 inhibitor-cofactor binding pocket; inhibition site 208963003081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963003082 catalytic residue [active] 208963003083 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 208963003084 thiamine phosphate binding site [chemical binding]; other site 208963003085 active site 208963003086 pyrophosphate binding site [ion binding]; other site 208963003087 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 208963003088 dimer interface [polypeptide binding]; other site 208963003089 substrate binding site [chemical binding]; other site 208963003090 ATP binding site [chemical binding]; other site 208963003091 protein fragment, probably inactive 208963003092 protein fragment, probably inactive 208963003093 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963003094 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963003095 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 208963003096 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963003097 active site 208963003098 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 208963003099 CoenzymeA binding site [chemical binding]; other site 208963003100 subunit interaction site [polypeptide binding]; other site 208963003101 PHB binding site; other site 208963003102 AMP nucleosidase; Provisional; Region: PRK08292 208963003103 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 208963003104 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 208963003105 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 208963003106 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 208963003107 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 208963003108 pseudouridine synthase; Region: TIGR00093 208963003109 active site 208963003110 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 208963003111 heme-binding site [chemical binding]; other site 208963003112 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 208963003113 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963003114 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 208963003115 putative DNA binding site [nucleotide binding]; other site 208963003116 putative Zn2+ binding site [ion binding]; other site 208963003117 AsnC family; Region: AsnC_trans_reg; pfam01037 208963003118 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 208963003119 Cation efflux family; Region: Cation_efflux; cl00316 208963003120 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 208963003121 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 208963003122 nucleotide binding region [chemical binding]; other site 208963003123 ATP-binding site [chemical binding]; other site 208963003124 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 208963003125 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 208963003126 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963003127 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 208963003128 putative metal binding site [ion binding]; other site 208963003129 short chain dehydrogenase; Provisional; Region: PRK06181 208963003130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963003131 NAD(P) binding site [chemical binding]; other site 208963003132 active site 208963003133 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 208963003134 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 208963003135 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 208963003136 active site 208963003137 dimer interface [polypeptide binding]; other site 208963003138 non-prolyl cis peptide bond; other site 208963003139 insertion regions; other site 208963003140 Isochorismatase family; Region: Isochorismatase; pfam00857 208963003141 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 208963003142 catalytic triad [active] 208963003143 conserved cis-peptide bond; other site 208963003144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 208963003145 Uncharacterized conserved protein [Function unknown]; Region: COG1432 208963003146 LabA_like proteins; Region: LabA; cd10911 208963003147 putative metal binding site [ion binding]; other site 208963003148 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 208963003149 ATP binding site [chemical binding]; other site 208963003150 Mg++ binding site [ion binding]; other site 208963003151 motif III; other site 208963003152 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 208963003153 nucleotide binding region [chemical binding]; other site 208963003154 ATP-binding site [chemical binding]; other site 208963003155 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 208963003156 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963003157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963003158 active site 208963003159 phosphorylation site [posttranslational modification] 208963003160 intermolecular recognition site; other site 208963003161 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 208963003162 DNA binding residues [nucleotide binding] 208963003163 dimerization interface [polypeptide binding]; other site 208963003164 Response regulator receiver domain; Region: Response_reg; pfam00072 208963003165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963003166 active site 208963003167 phosphorylation site [posttranslational modification] 208963003168 intermolecular recognition site; other site 208963003169 dimerization interface [polypeptide binding]; other site 208963003170 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 208963003171 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 208963003172 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 208963003173 substrate binding pocket [chemical binding]; other site 208963003174 membrane-bound complex binding site; other site 208963003175 hinge residues; other site 208963003176 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 208963003177 substrate binding pocket [chemical binding]; other site 208963003178 membrane-bound complex binding site; other site 208963003179 hinge residues; other site 208963003180 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 208963003181 putative active site [active] 208963003182 heme pocket [chemical binding]; other site 208963003183 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 208963003184 dimer interface [polypeptide binding]; other site 208963003185 phosphorylation site [posttranslational modification] 208963003186 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963003187 ATP binding site [chemical binding]; other site 208963003188 Mg2+ binding site [ion binding]; other site 208963003189 G-X-G motif; other site 208963003190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963003191 active site 208963003192 phosphorylation site [posttranslational modification] 208963003193 intermolecular recognition site; other site 208963003194 dimerization interface [polypeptide binding]; other site 208963003195 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 208963003196 putative binding surface; other site 208963003197 active site 208963003198 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 208963003199 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 208963003200 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963003201 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 208963003202 NADPH bind site [chemical binding]; other site 208963003203 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 208963003204 putative FMN binding site [chemical binding]; other site 208963003205 NADPH bind site [chemical binding]; other site 208963003206 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 208963003207 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 208963003208 active site 208963003209 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 208963003210 catalytic triad [active] 208963003211 dimer interface [polypeptide binding]; other site 208963003212 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 208963003213 active site 208963003214 motif I; other site 208963003215 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 208963003216 motif II; other site 208963003217 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 208963003218 IHF dimer interface [polypeptide binding]; other site 208963003219 IHF - DNA interface [nucleotide binding]; other site 208963003220 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 208963003221 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 208963003222 substrate binding pocket [chemical binding]; other site 208963003223 membrane-bound complex binding site; other site 208963003224 hinge residues; other site 208963003225 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 208963003226 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 208963003227 Walker A/P-loop; other site 208963003228 ATP binding site [chemical binding]; other site 208963003229 Q-loop/lid; other site 208963003230 ABC transporter signature motif; other site 208963003231 Walker B; other site 208963003232 D-loop; other site 208963003233 H-loop/switch region; other site 208963003234 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 208963003235 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963003236 dimer interface [polypeptide binding]; other site 208963003237 conserved gate region; other site 208963003238 putative PBP binding loops; other site 208963003239 ABC-ATPase subunit interface; other site 208963003240 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 208963003241 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 208963003242 Predicted membrane protein [Function unknown]; Region: COG1297 208963003243 BCCT family transporter; Region: BCCT; cl00569 208963003244 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 208963003245 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 208963003246 Walker A motif; other site 208963003247 ATP binding site [chemical binding]; other site 208963003248 Walker B motif; other site 208963003249 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 208963003250 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 208963003251 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 208963003252 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 208963003253 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 208963003254 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 208963003255 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963003256 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963003257 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963003258 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963003259 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963003260 putative substrate translocation pore; other site 208963003261 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 208963003262 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 208963003263 dimer interface [polypeptide binding]; other site 208963003264 active site 208963003265 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 208963003266 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 208963003267 dimer interface [polypeptide binding]; other site 208963003268 acyl-activating enzyme (AAE) consensus motif; other site 208963003269 putative active site [active] 208963003270 AMP binding site [chemical binding]; other site 208963003271 putative CoA binding site [chemical binding]; other site 208963003272 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 208963003273 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 208963003274 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 208963003275 AAA ATPase domain; Region: AAA_16; pfam13191 208963003276 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 208963003277 DNA binding residues [nucleotide binding] 208963003278 dimerization interface [polypeptide binding]; other site 208963003279 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 208963003280 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 208963003281 metal-binding site [ion binding] 208963003282 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 208963003283 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 208963003284 metal-binding site [ion binding] 208963003285 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 208963003286 Soluble P-type ATPase [General function prediction only]; Region: COG4087 208963003287 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 208963003288 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 208963003289 putative active site [active] 208963003290 PhoH-like protein; Region: PhoH; pfam02562 208963003291 CHAD domain; Region: CHAD; pfam05235 208963003292 Low molecular weight phosphatase family; Region: LMWPc; cl00105 208963003293 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 208963003294 active site 208963003295 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 208963003296 trimer interface [polypeptide binding]; other site 208963003297 dimer interface [polypeptide binding]; other site 208963003298 putative active site [active] 208963003299 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 208963003300 MoaE interaction surface [polypeptide binding]; other site 208963003301 MoeB interaction surface [polypeptide binding]; other site 208963003302 thiocarboxylated glycine; other site 208963003303 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 208963003304 MoaE homodimer interface [polypeptide binding]; other site 208963003305 MoaD interaction [polypeptide binding]; other site 208963003306 active site residues [active] 208963003307 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 208963003308 MPT binding site; other site 208963003309 trimer interface [polypeptide binding]; other site 208963003310 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 208963003311 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 208963003312 dimer interface [polypeptide binding]; other site 208963003313 putative functional site; other site 208963003314 putative MPT binding site; other site 208963003315 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 208963003316 Peptidase family U32; Region: Peptidase_U32; pfam01136 208963003317 putative protease; Provisional; Region: PRK15447 208963003318 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 208963003319 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 208963003320 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 208963003321 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 208963003322 putative active site [active] 208963003323 putative metal binding site [ion binding]; other site 208963003324 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 208963003325 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 208963003326 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 208963003327 generic binding surface I; other site 208963003328 generic binding surface II; other site 208963003329 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 208963003330 putative active site [active] 208963003331 putative catalytic site [active] 208963003332 putative Mg binding site IVb [ion binding]; other site 208963003333 putative phosphate binding site [ion binding]; other site 208963003334 putative DNA binding site [nucleotide binding]; other site 208963003335 putative Mg binding site IVa [ion binding]; other site 208963003336 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 208963003337 Uncharacterized conserved protein [Function unknown]; Region: COG4104 208963003338 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 208963003339 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 208963003340 G1 box; other site 208963003341 putative GEF interaction site [polypeptide binding]; other site 208963003342 GTP/Mg2+ binding site [chemical binding]; other site 208963003343 Switch I region; other site 208963003344 G2 box; other site 208963003345 G3 box; other site 208963003346 Switch II region; other site 208963003347 G4 box; other site 208963003348 G5 box; other site 208963003349 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 208963003350 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 208963003351 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 208963003352 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 208963003353 N-terminal plug; other site 208963003354 ligand-binding site [chemical binding]; other site 208963003355 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963003356 FecR protein; Region: FecR; pfam04773 208963003357 RNA polymerase sigma factor; Provisional; Region: PRK12528 208963003358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963003359 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 208963003360 DNA binding residues [nucleotide binding] 208963003361 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 208963003362 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963003363 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 208963003364 EamA-like transporter family; Region: EamA; pfam00892 208963003365 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 208963003366 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 208963003367 dimerization interface [polypeptide binding]; other site 208963003368 ligand binding site [chemical binding]; other site 208963003369 NADP binding site [chemical binding]; other site 208963003370 catalytic site [active] 208963003371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963003372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963003373 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 208963003374 putative effector binding pocket; other site 208963003375 dimerization interface [polypeptide binding]; other site 208963003376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 208963003377 Fusaric acid resistance protein family; Region: FUSC; pfam04632 208963003378 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 208963003379 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 208963003380 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963003381 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963003382 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 208963003383 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 208963003384 Walker A/P-loop; other site 208963003385 ATP binding site [chemical binding]; other site 208963003386 Q-loop/lid; other site 208963003387 ABC transporter signature motif; other site 208963003388 Walker B; other site 208963003389 D-loop; other site 208963003390 H-loop/switch region; other site 208963003391 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 208963003392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963003393 dimer interface [polypeptide binding]; other site 208963003394 conserved gate region; other site 208963003395 ABC-ATPase subunit interface; other site 208963003396 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 208963003397 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 208963003398 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 208963003399 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963003400 ABC-ATPase subunit interface; other site 208963003401 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 208963003402 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 208963003403 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 208963003404 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 208963003405 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 208963003406 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 208963003407 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 208963003408 short chain dehydrogenase; Provisional; Region: PRK05693 208963003409 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 208963003410 NADP binding site [chemical binding]; other site 208963003411 active site 208963003412 steroid binding site; other site 208963003413 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 208963003414 Uncharacterized conserved protein [Function unknown]; Region: COG4273 208963003415 transcriptional regulator NarL; Provisional; Region: PRK10651 208963003416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963003417 active site 208963003418 phosphorylation site [posttranslational modification] 208963003419 intermolecular recognition site; other site 208963003420 dimerization interface [polypeptide binding]; other site 208963003421 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 208963003422 DNA binding residues [nucleotide binding] 208963003423 dimerization interface [polypeptide binding]; other site 208963003424 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 208963003425 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 208963003426 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 208963003427 dimerization interface [polypeptide binding]; other site 208963003428 Histidine kinase; Region: HisKA_3; pfam07730 208963003429 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963003430 ATP binding site [chemical binding]; other site 208963003431 Mg2+ binding site [ion binding]; other site 208963003432 G-X-G motif; other site 208963003433 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 208963003434 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963003435 putative substrate translocation pore; other site 208963003436 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 208963003437 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 208963003438 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 208963003439 [4Fe-4S] binding site [ion binding]; other site 208963003440 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 208963003441 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 208963003442 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 208963003443 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 208963003444 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 208963003445 molybdopterin cofactor binding site; other site 208963003446 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 208963003447 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 208963003448 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 208963003449 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 208963003450 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 208963003451 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 208963003452 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 208963003453 FeS/SAM binding site; other site 208963003454 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 208963003455 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 208963003456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963003457 Walker A/P-loop; other site 208963003458 ATP binding site [chemical binding]; other site 208963003459 Integrase core domain; Region: rve; pfam00665 208963003460 protein fragment, probably inactive 208963003461 protein fragment, probably inactive 208963003462 S-type Pyocin; Region: Pyocin_S; pfam06958 208963003463 Colicin C terminal ribonuclease domain; Region: Colicin_C; pfam12106 208963003464 Colicin-E5 Imm protein; Region: ImmE5; pfam11480 208963003465 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 208963003466 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 208963003467 substrate binding pocket [chemical binding]; other site 208963003468 membrane-bound complex binding site; other site 208963003469 hinge residues; other site 208963003470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 208963003471 YheO-like PAS domain; Region: PAS_6; pfam08348 208963003472 HTH domain; Region: HTH_22; pfam13309 208963003473 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963003474 hydroxyglutarate oxidase; Provisional; Region: PRK11728 208963003475 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 208963003476 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 208963003477 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 208963003478 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 208963003479 ATP binding site [chemical binding]; other site 208963003480 Mg++ binding site [ion binding]; other site 208963003481 motif III; other site 208963003482 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 208963003483 nucleotide binding region [chemical binding]; other site 208963003484 ATP-binding site [chemical binding]; other site 208963003485 AMP-binding domain protein; Validated; Region: PRK07529 208963003486 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963003487 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 208963003488 acyl-activating enzyme (AAE) consensus motif; other site 208963003489 putative AMP binding site [chemical binding]; other site 208963003490 putative active site [active] 208963003491 putative CoA binding site [chemical binding]; other site 208963003492 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 208963003493 putative hydrolase; Provisional; Region: PRK11460 208963003494 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 208963003495 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 208963003496 substrate binding pocket [chemical binding]; other site 208963003497 membrane-bound complex binding site; other site 208963003498 hinge residues; other site 208963003499 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 208963003500 SnoaL-like domain; Region: SnoaL_2; pfam12680 208963003501 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 208963003502 putative C-terminal domain interface [polypeptide binding]; other site 208963003503 putative GSH binding site [chemical binding]; other site 208963003504 putative dimer interface [polypeptide binding]; other site 208963003505 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 208963003506 putative N-terminal domain interface [polypeptide binding]; other site 208963003507 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 208963003508 GIY-YIG motif/motif A; other site 208963003509 putative active site [active] 208963003510 putative metal binding site [ion binding]; other site 208963003511 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 208963003512 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 208963003513 trimer interface [polypeptide binding]; other site 208963003514 active site 208963003515 substrate binding site [chemical binding]; other site 208963003516 CoA binding site [chemical binding]; other site 208963003517 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963003518 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 208963003519 C-terminal domain interface [polypeptide binding]; other site 208963003520 GSH binding site (G-site) [chemical binding]; other site 208963003521 dimer interface [polypeptide binding]; other site 208963003522 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 208963003523 substrate binding pocket (H-site) [chemical binding]; other site 208963003524 N-terminal domain interface [polypeptide binding]; other site 208963003525 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 208963003526 Nucleoid-associated protein [General function prediction only]; Region: COG3081 208963003527 nucleoid-associated protein NdpA; Validated; Region: PRK00378 208963003528 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 208963003529 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 208963003530 hydrophobic ligand binding site; other site 208963003531 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 208963003532 Isochorismatase family; Region: Isochorismatase; pfam00857 208963003533 catalytic triad [active] 208963003534 dimer interface [polypeptide binding]; other site 208963003535 conserved cis-peptide bond; other site 208963003536 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963003537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963003538 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 208963003539 dimerization interface [polypeptide binding]; other site 208963003540 substrate binding pocket [chemical binding]; other site 208963003541 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963003542 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 208963003543 C-terminal domain interface [polypeptide binding]; other site 208963003544 GSH binding site (G-site) [chemical binding]; other site 208963003545 dimer interface [polypeptide binding]; other site 208963003546 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 208963003547 dimer interface [polypeptide binding]; other site 208963003548 N-terminal domain interface [polypeptide binding]; other site 208963003549 putative substrate binding pocket (H-site) [chemical binding]; other site 208963003550 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 208963003551 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 208963003552 putative NAD(P) binding site [chemical binding]; other site 208963003553 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 208963003554 dimerization interface [polypeptide binding]; other site 208963003555 putative DNA binding site [nucleotide binding]; other site 208963003556 putative Zn2+ binding site [ion binding]; other site 208963003557 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 208963003558 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 208963003559 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 208963003560 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 208963003561 S-adenosylmethionine binding site [chemical binding]; other site 208963003562 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 208963003563 transmembrane helices; other site 208963003564 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 208963003565 TrkA-C domain; Region: TrkA_C; pfam02080 208963003566 TrkA-C domain; Region: TrkA_C; pfam02080 208963003567 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 208963003568 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 208963003569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963003570 Walker A/P-loop; other site 208963003571 ATP binding site [chemical binding]; other site 208963003572 Q-loop/lid; other site 208963003573 ABC transporter signature motif; other site 208963003574 Walker B; other site 208963003575 D-loop; other site 208963003576 H-loop/switch region; other site 208963003577 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 208963003578 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 208963003579 TM-ABC transporter signature motif; other site 208963003580 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 208963003581 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 208963003582 zinc binding site [ion binding]; other site 208963003583 putative ligand binding site [chemical binding]; other site 208963003584 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 208963003585 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 208963003586 HIGH motif; other site 208963003587 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 208963003588 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 208963003589 active site 208963003590 KMSKS motif; other site 208963003591 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 208963003592 tRNA binding surface [nucleotide binding]; other site 208963003593 anticodon binding site; other site 208963003594 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 208963003595 DNA polymerase III subunit chi; Validated; Region: PRK05728 208963003596 multifunctional aminopeptidase A; Provisional; Region: PRK00913 208963003597 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 208963003598 interface (dimer of trimers) [polypeptide binding]; other site 208963003599 Substrate-binding/catalytic site; other site 208963003600 Zn-binding sites [ion binding]; other site 208963003601 Cupin domain; Region: Cupin_2; pfam07883 208963003602 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963003603 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963003604 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963003605 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 208963003606 Predicted permeases [General function prediction only]; Region: COG0795 208963003607 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 208963003608 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 208963003609 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 208963003610 RDD family; Region: RDD; pfam06271 208963003611 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 208963003612 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 208963003613 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 208963003614 Mu-like prophage protein Com; Region: Mu-like_Com; pfam10122 208963003615 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 208963003616 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 208963003617 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 208963003618 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 208963003619 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 208963003620 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 208963003621 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 208963003622 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 208963003623 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 208963003624 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 208963003625 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 208963003626 Protein export membrane protein; Region: SecD_SecF; cl14618 208963003627 hypothetical protein; Provisional; Region: PRK11280 208963003628 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 208963003629 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 208963003630 active site 208963003631 dimerization interface [polypeptide binding]; other site 208963003632 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 208963003633 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 208963003634 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 208963003635 serine O-acetyltransferase; Region: cysE; TIGR01172 208963003636 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 208963003637 trimer interface [polypeptide binding]; other site 208963003638 active site 208963003639 substrate binding site [chemical binding]; other site 208963003640 CoA binding site [chemical binding]; other site 208963003641 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 208963003642 Rrf2 family protein; Region: rrf2_super; TIGR00738 208963003643 cysteine desulfurase; Provisional; Region: PRK14012 208963003644 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 208963003645 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963003646 catalytic residue [active] 208963003647 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 208963003648 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 208963003649 trimerization site [polypeptide binding]; other site 208963003650 active site 208963003651 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 208963003652 co-chaperone HscB; Provisional; Region: hscB; PRK00294 208963003653 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 208963003654 HSP70 interaction site [polypeptide binding]; other site 208963003655 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 208963003656 chaperone protein HscA; Provisional; Region: hscA; PRK05183 208963003657 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 208963003658 nucleotide binding site [chemical binding]; other site 208963003659 putative NEF/HSP70 interaction site [polypeptide binding]; other site 208963003660 SBD interface [polypeptide binding]; other site 208963003661 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 208963003662 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 208963003663 catalytic loop [active] 208963003664 iron binding site [ion binding]; other site 208963003665 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 208963003666 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 208963003667 active site 208963003668 multimer interface [polypeptide binding]; other site 208963003669 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 208963003670 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 208963003671 FeS/SAM binding site; other site 208963003672 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 208963003673 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 208963003674 binding surface 208963003675 TPR motif; other site 208963003676 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 208963003677 binding surface 208963003678 TPR motif; other site 208963003679 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 208963003680 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 208963003681 non-specific DNA binding site [nucleotide binding]; other site 208963003682 salt bridge; other site 208963003683 sequence-specific DNA binding site [nucleotide binding]; other site 208963003684 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 208963003685 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 208963003686 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 208963003687 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 208963003688 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 208963003689 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 208963003690 dimer interface [polypeptide binding]; other site 208963003691 motif 1; other site 208963003692 active site 208963003693 motif 2; other site 208963003694 motif 3; other site 208963003695 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 208963003696 anticodon binding site; other site 208963003697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 208963003698 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 208963003699 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 208963003700 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 208963003701 Trp docking motif [polypeptide binding]; other site 208963003702 active site 208963003703 GTP-binding protein Der; Reviewed; Region: PRK00093 208963003704 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 208963003705 G1 box; other site 208963003706 GTP/Mg2+ binding site [chemical binding]; other site 208963003707 Switch I region; other site 208963003708 G2 box; other site 208963003709 Switch II region; other site 208963003710 G3 box; other site 208963003711 G4 box; other site 208963003712 G5 box; other site 208963003713 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 208963003714 G1 box; other site 208963003715 GTP/Mg2+ binding site [chemical binding]; other site 208963003716 Switch I region; other site 208963003717 G2 box; other site 208963003718 G3 box; other site 208963003719 Switch II region; other site 208963003720 G4 box; other site 208963003721 G5 box; other site 208963003722 methionine aminotransferase; Validated; Region: PRK09082 208963003723 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 208963003724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963003725 homodimer interface [polypeptide binding]; other site 208963003726 catalytic residue [active] 208963003727 C-N hydrolase family amidase; Provisional; Region: PRK10438 208963003728 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 208963003729 putative active site [active] 208963003730 catalytic triad [active] 208963003731 dimer interface [polypeptide binding]; other site 208963003732 multimer interface [polypeptide binding]; other site 208963003733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 208963003734 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 208963003735 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963003736 active site 208963003737 catalytic tetrad [active] 208963003738 2-isopropylmalate synthase; Validated; Region: PRK03739 208963003739 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 208963003740 active site 208963003741 catalytic residues [active] 208963003742 metal binding site [ion binding]; metal-binding site 208963003743 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 208963003744 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 208963003745 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 208963003746 N-terminal plug; other site 208963003747 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 208963003748 ligand-binding site [chemical binding]; other site 208963003749 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 208963003750 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 208963003751 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 208963003752 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 208963003753 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 208963003754 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 208963003755 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963003756 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 208963003757 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 208963003758 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 208963003759 Isochorismatase family; Region: Isochorismatase; pfam00857 208963003760 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 208963003761 catalytic triad [active] 208963003762 conserved cis-peptide bond; other site 208963003763 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 208963003764 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 208963003765 conserved cys residue [active] 208963003766 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963003767 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 208963003768 DctM-like transporters; Region: DctM; pfam06808 208963003769 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 208963003770 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 208963003771 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 208963003772 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 208963003773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963003774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963003775 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 208963003776 dimerization interface [polypeptide binding]; other site 208963003777 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 208963003778 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 208963003779 generic binding surface II; other site 208963003780 generic binding surface I; other site 208963003781 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 208963003782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963003783 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 208963003784 dimerization interface [polypeptide binding]; other site 208963003785 substrate binding pocket [chemical binding]; other site 208963003786 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 208963003787 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 208963003788 active site 208963003789 Zn binding site [ion binding]; other site 208963003790 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 208963003791 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963003792 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 208963003793 DNA binding residues [nucleotide binding] 208963003794 dimerization interface [polypeptide binding]; other site 208963003795 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 208963003796 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 208963003797 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 208963003798 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 208963003799 active site 208963003800 GMP synthase; Reviewed; Region: guaA; PRK00074 208963003801 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 208963003802 AMP/PPi binding site [chemical binding]; other site 208963003803 candidate oxyanion hole; other site 208963003804 catalytic triad [active] 208963003805 potential glutamine specificity residues [chemical binding]; other site 208963003806 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 208963003807 ATP Binding subdomain [chemical binding]; other site 208963003808 Dimerization subdomain; other site 208963003809 integrase; Provisional; Region: PRK09692 208963003810 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 208963003811 active site 208963003812 Int/Topo IB signature motif; other site 208963003813 putative transcriptional regulator; Provisional; Region: tfx; cl17550 208963003814 AAA domain; Region: AAA_25; pfam13481 208963003815 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 208963003816 Walker A motif; other site 208963003817 NTP binding site [chemical binding]; other site 208963003818 hexamer interface [polypeptide binding]; other site 208963003819 Walker B motif; other site 208963003820 Replication protein C (RepC); Region: RepC; pfam06504 208963003821 protein fragment, probably inactive 208963003822 protein fragment, probably inactive 208963003823 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 208963003824 multiple promoter invertase; Provisional; Region: mpi; PRK13413 208963003825 catalytic residues [active] 208963003826 catalytic nucleophile [active] 208963003827 Presynaptic Site I dimer interface [polypeptide binding]; other site 208963003828 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 208963003829 Synaptic Flat tetramer interface [polypeptide binding]; other site 208963003830 Synaptic Site I dimer interface [polypeptide binding]; other site 208963003831 DNA binding site [nucleotide binding] 208963003832 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 208963003833 DNA-binding interface [nucleotide binding]; DNA binding site 208963003834 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 208963003835 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 208963003836 putative mercury resistance protein; Provisional; Region: PRK13747 208963003837 transcriptional regulator MerD; Provisional; Region: PRK13749 208963003838 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 208963003839 DNA binding residues [nucleotide binding] 208963003840 putative dimer interface [polypeptide binding]; other site 208963003841 putative mercuric reductase; Provisional; Region: PRK13748 208963003842 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 208963003843 metal-binding site [ion binding] 208963003844 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963003845 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 208963003846 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 208963003847 metal-binding site [ion binding] 208963003848 putative mercuric transport protein; Provisional; Region: PRK13751 208963003849 putative transcriptional regulator MerR; Provisional; Region: PRK13752 208963003850 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 208963003851 DNA binding residues [nucleotide binding] 208963003852 dimer interface [polypeptide binding]; other site 208963003853 mercury binding site [ion binding]; other site 208963003854 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 208963003855 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 208963003856 entry exclusion lipoprotein TrbK; Region: TrbK_RP4; TIGR04359 208963003857 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 208963003858 Helix-turn-helix domain; Region: HTH_17; pfam12728 208963003859 Methyltransferase domain; Region: Methyltransf_26; pfam13659 208963003860 DEAD-like helicases superfamily; Region: DEXDc; smart00487 208963003861 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 208963003862 ATP binding site [chemical binding]; other site 208963003863 putative Mg++ binding site [ion binding]; other site 208963003864 T5orf172 domain; Region: T5orf172; pfam10544 208963003865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 208963003866 Q-loop/lid; other site 208963003867 ABC transporter signature motif; other site 208963003868 Walker B; other site 208963003869 D-loop; other site 208963003870 H-loop/switch region; other site 208963003871 oxidoreductase; Provisional; Region: PRK06196 208963003872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963003873 NAD(P) binding site [chemical binding]; other site 208963003874 active site 208963003875 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963003876 putative substrate translocation pore; other site 208963003877 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963003878 Cupin; Region: Cupin_6; pfam12852 208963003879 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963003880 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963003881 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 208963003882 Prostaglandin dehydrogenases; Region: PGDH; cd05288 208963003883 NAD(P) binding site [chemical binding]; other site 208963003884 substrate binding site [chemical binding]; other site 208963003885 dimer interface [polypeptide binding]; other site 208963003886 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 208963003887 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 208963003888 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 208963003889 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 208963003890 nucleoside/Zn binding site; other site 208963003891 dimer interface [polypeptide binding]; other site 208963003892 catalytic motif [active] 208963003893 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 208963003894 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 208963003895 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 208963003896 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 208963003897 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 208963003898 substrate binding pocket [chemical binding]; other site 208963003899 membrane-bound complex binding site; other site 208963003900 hinge residues; other site 208963003901 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 208963003902 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963003903 catalytic residue [active] 208963003904 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 208963003905 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 208963003906 dimerization interface [polypeptide binding]; other site 208963003907 ATP binding site [chemical binding]; other site 208963003908 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 208963003909 dimerization interface [polypeptide binding]; other site 208963003910 ATP binding site [chemical binding]; other site 208963003911 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 208963003912 putative active site [active] 208963003913 catalytic triad [active] 208963003914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 208963003915 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 208963003916 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 208963003917 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 208963003918 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 208963003919 active site turn [active] 208963003920 phosphorylation site [posttranslational modification] 208963003921 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 208963003922 HPr interaction site; other site 208963003923 glycerol kinase (GK) interaction site [polypeptide binding]; other site 208963003924 active site 208963003925 phosphorylation site [posttranslational modification] 208963003926 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 208963003927 regulatory protein interface [polypeptide binding]; other site 208963003928 active site 208963003929 regulatory phosphorylation site [posttranslational modification]; other site 208963003930 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 208963003931 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 208963003932 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 208963003933 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 208963003934 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 208963003935 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 208963003936 dimer interface [polypeptide binding]; other site 208963003937 active site 208963003938 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 208963003939 dimer interface [polypeptide binding]; other site 208963003940 active site 208963003941 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 208963003942 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 208963003943 active site 208963003944 dimer interface [polypeptide binding]; other site 208963003945 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 208963003946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963003947 DNA-binding site [nucleotide binding]; DNA binding site 208963003948 UTRA domain; Region: UTRA; pfam07702 208963003949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 208963003950 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 208963003951 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 208963003952 nudix motif; other site 208963003953 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 208963003954 putative active site [active] 208963003955 putative CoA binding site [chemical binding]; other site 208963003956 nudix motif; other site 208963003957 metal binding site [ion binding]; metal-binding site 208963003958 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 208963003959 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 208963003960 trimer interface [polypeptide binding]; other site 208963003961 putative metal binding site [ion binding]; other site 208963003962 Predicted Fe-S protein [General function prediction only]; Region: COG3313 208963003963 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 208963003964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963003965 ATP-grasp domain; Region: ATP-grasp; pfam02222 208963003966 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 208963003967 active site 208963003968 catalytic triad [active] 208963003969 oxyanion hole [active] 208963003970 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963003971 metabolite-proton symporter; Region: 2A0106; TIGR00883 208963003972 putative substrate translocation pore; other site 208963003973 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 208963003974 Domain of unknown function DUF21; Region: DUF21; pfam01595 208963003975 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 208963003976 Transporter associated domain; Region: CorC_HlyC; smart01091 208963003977 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 208963003978 signal recognition particle protein; Provisional; Region: PRK10867 208963003979 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 208963003980 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 208963003981 P loop; other site 208963003982 GTP binding site [chemical binding]; other site 208963003983 Signal peptide binding domain; Region: SRP_SPB; pfam02978 208963003984 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 208963003985 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 208963003986 RimM N-terminal domain; Region: RimM; pfam01782 208963003987 PRC-barrel domain; Region: PRC; pfam05239 208963003988 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 208963003989 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 208963003990 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 208963003991 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 208963003992 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 208963003993 TrkA-N domain; Region: TrkA_N; pfam02254 208963003994 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 208963003995 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 208963003996 active site 208963003997 Int/Topo IB signature motif; other site 208963003998 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 208963003999 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 208963004000 dimerization domain [polypeptide binding]; other site 208963004001 dimer interface [polypeptide binding]; other site 208963004002 catalytic residues [active] 208963004003 homoserine dehydrogenase; Provisional; Region: PRK06349 208963004004 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 208963004005 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 208963004006 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 208963004007 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 208963004008 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 208963004009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963004010 catalytic residue [active] 208963004011 Chlorophyllase enzyme; Region: Chlorophyllase2; pfam12740 208963004012 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 208963004013 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 208963004014 CoA-transferase family III; Region: CoA_transf_3; pfam02515 208963004015 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 208963004016 nucleotide binding site [chemical binding]; other site 208963004017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 208963004018 PspA/IM30 family; Region: PspA_IM30; pfam04012 208963004019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 208963004020 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 208963004021 ATPase involved in DNA repair; Region: DUF3686; pfam12458 208963004022 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 208963004023 linker region; other site 208963004024 AAA domain; Region: AAA_22; pfam13401 208963004025 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 208963004026 Walker A motif; other site 208963004027 ATP binding site [chemical binding]; other site 208963004028 Walker B motif; other site 208963004029 Catalytic domain of vertebrate phospholipase D6 and similar proteins; Region: PLDc_vPLD6_like; cd09171 208963004030 PLD-like domain; Region: PLDc_2; pfam13091 208963004031 putative active site [active] 208963004032 catalytic site [active] 208963004033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 208963004034 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 208963004035 DHH family; Region: DHH; pfam01368 208963004036 DHHA1 domain; Region: DHHA1; pfam02272 208963004037 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 208963004038 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 208963004039 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 208963004040 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 208963004041 active site 208963004042 Zn binding site [ion binding]; other site 208963004043 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963004044 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 208963004045 active site 208963004046 FMN binding site [chemical binding]; other site 208963004047 substrate binding site [chemical binding]; other site 208963004048 homotetramer interface [polypeptide binding]; other site 208963004049 catalytic residue [active] 208963004050 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963004051 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963004052 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963004053 putative substrate translocation pore; other site 208963004054 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963004055 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 208963004056 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 208963004057 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963004058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963004059 active site 208963004060 phosphorylation site [posttranslational modification] 208963004061 intermolecular recognition site; other site 208963004062 dimerization interface [polypeptide binding]; other site 208963004063 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 208963004064 DNA binding residues [nucleotide binding] 208963004065 dimerization interface [polypeptide binding]; other site 208963004066 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963004067 Protein of unknown function (DUF533); Region: DUF533; pfam04391 208963004068 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 208963004069 putative metal binding site [ion binding]; other site 208963004070 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963004071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963004072 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 208963004073 dimerization interface [polypeptide binding]; other site 208963004074 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 208963004075 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 208963004076 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963004077 putative substrate translocation pore; other site 208963004078 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 208963004079 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 208963004080 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 208963004081 dimerization interface [polypeptide binding]; other site 208963004082 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963004083 dimer interface [polypeptide binding]; other site 208963004084 putative CheW interface [polypeptide binding]; other site 208963004085 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 208963004086 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 208963004087 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 208963004088 S-adenosylmethionine binding site [chemical binding]; other site 208963004089 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 208963004090 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 208963004091 putative binding surface; other site 208963004092 active site 208963004093 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 208963004094 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963004095 ATP binding site [chemical binding]; other site 208963004096 Mg2+ binding site [ion binding]; other site 208963004097 G-X-G motif; other site 208963004098 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 208963004099 Response regulator receiver domain; Region: Response_reg; pfam00072 208963004100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963004101 active site 208963004102 phosphorylation site [posttranslational modification] 208963004103 intermolecular recognition site; other site 208963004104 dimerization interface [polypeptide binding]; other site 208963004105 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 208963004106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963004107 active site 208963004108 phosphorylation site [posttranslational modification] 208963004109 intermolecular recognition site; other site 208963004110 CheB methylesterase; Region: CheB_methylest; pfam01339 208963004111 Response regulator receiver domain; Region: Response_reg; pfam00072 208963004112 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963004113 active site 208963004114 phosphorylation site [posttranslational modification] 208963004115 intermolecular recognition site; other site 208963004116 dimerization interface [polypeptide binding]; other site 208963004117 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963004118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963004119 metal binding site [ion binding]; metal-binding site 208963004120 active site 208963004121 I-site; other site 208963004122 peptide chain release factor 2; Region: prfB; TIGR00020 208963004123 This domain is found in peptide chain release factors; Region: PCRF; smart00937 208963004124 RF-1 domain; Region: RF-1; pfam00472 208963004125 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 208963004126 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 208963004127 dimer interface [polypeptide binding]; other site 208963004128 putative anticodon binding site; other site 208963004129 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 208963004130 motif 1; other site 208963004131 active site 208963004132 motif 2; other site 208963004133 motif 3; other site 208963004134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 208963004135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3930 208963004136 Uncharacterized conserved protein [Function unknown]; Region: COG2013 208963004137 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 208963004138 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963004139 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963004140 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963004141 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 208963004142 putative ADP-ribose binding site [chemical binding]; other site 208963004143 putative active site [active] 208963004144 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963004145 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963004146 ligand binding site [chemical binding]; other site 208963004147 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 208963004148 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 208963004149 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 208963004150 metal-binding site [ion binding] 208963004151 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 208963004152 Soluble P-type ATPase [General function prediction only]; Region: COG4087 208963004153 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 208963004154 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 208963004155 DNA binding residues [nucleotide binding] 208963004156 dimer interface [polypeptide binding]; other site 208963004157 putative metal binding site [ion binding]; other site 208963004158 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 208963004159 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 208963004160 adenylate kinase; Reviewed; Region: adk; PRK00279 208963004161 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 208963004162 AMP-binding site [chemical binding]; other site 208963004163 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 208963004164 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 208963004165 Glycoprotease family; Region: Peptidase_M22; pfam00814 208963004166 Protein of unknown function DUF72; Region: DUF72; cl00777 208963004167 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 208963004168 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 208963004169 tetramer interface [polypeptide binding]; other site 208963004170 active site 208963004171 Mg2+/Mn2+ binding site [ion binding]; other site 208963004172 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 208963004173 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 208963004174 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 208963004175 Cytochrome P450; Region: p450; cl12078 208963004176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963004177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963004178 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 208963004179 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963004180 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963004181 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963004182 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 208963004183 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 208963004184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 208963004185 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 208963004186 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 208963004187 putative acyl-acceptor binding pocket; other site 208963004188 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 208963004189 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 208963004190 Walker A/P-loop; other site 208963004191 ATP binding site [chemical binding]; other site 208963004192 Q-loop/lid; other site 208963004193 ABC transporter signature motif; other site 208963004194 Walker B; other site 208963004195 D-loop; other site 208963004196 H-loop/switch region; other site 208963004197 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 208963004198 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 208963004199 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 208963004200 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 208963004201 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 208963004202 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 208963004203 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 208963004204 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963004205 catalytic residue [active] 208963004206 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 208963004207 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 208963004208 putative trimer interface [polypeptide binding]; other site 208963004209 putative CoA binding site [chemical binding]; other site 208963004210 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963004211 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 208963004212 ArsC family; Region: ArsC; pfam03960 208963004213 putative catalytic residues [active] 208963004214 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 208963004215 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 208963004216 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 208963004217 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 208963004218 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 208963004219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963004220 homodimer interface [polypeptide binding]; other site 208963004221 catalytic residue [active] 208963004222 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 208963004223 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 208963004224 metal binding triad; other site 208963004225 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 208963004226 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963004227 Zn2+ binding site [ion binding]; other site 208963004228 Mg2+ binding site [ion binding]; other site 208963004229 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 208963004230 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 208963004231 methionine aminopeptidase; Provisional; Region: PRK08671 208963004232 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 208963004233 active site 208963004234 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 208963004235 rRNA interaction site [nucleotide binding]; other site 208963004236 S8 interaction site; other site 208963004237 putative laminin-1 binding site; other site 208963004238 elongation factor Ts; Provisional; Region: tsf; PRK09377 208963004239 UBA/TS-N domain; Region: UBA; pfam00627 208963004240 Elongation factor TS; Region: EF_TS; pfam00889 208963004241 Elongation factor TS; Region: EF_TS; pfam00889 208963004242 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 208963004243 putative nucleotide binding site [chemical binding]; other site 208963004244 uridine monophosphate binding site [chemical binding]; other site 208963004245 homohexameric interface [polypeptide binding]; other site 208963004246 ribosome recycling factor; Reviewed; Region: frr; PRK00083 208963004247 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 208963004248 hinge region; other site 208963004249 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 208963004250 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 208963004251 catalytic residue [active] 208963004252 putative FPP diphosphate binding site; other site 208963004253 putative FPP binding hydrophobic cleft; other site 208963004254 dimer interface [polypeptide binding]; other site 208963004255 putative IPP diphosphate binding site; other site 208963004256 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 208963004257 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 208963004258 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 208963004259 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 208963004260 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 208963004261 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 208963004262 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 208963004263 zinc metallopeptidase RseP; Provisional; Region: PRK10779 208963004264 active site 208963004265 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 208963004266 protein binding site [polypeptide binding]; other site 208963004267 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 208963004268 protein binding site [polypeptide binding]; other site 208963004269 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 208963004270 putative substrate binding region [chemical binding]; other site 208963004271 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 208963004272 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 208963004273 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 208963004274 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 208963004275 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 208963004276 Surface antigen; Region: Bac_surface_Ag; pfam01103 208963004277 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 208963004278 periplasmic chaperone; Provisional; Region: PRK10780 208963004279 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 208963004280 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 208963004281 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 208963004282 trimer interface [polypeptide binding]; other site 208963004283 active site 208963004284 UDP-GlcNAc binding site [chemical binding]; other site 208963004285 lipid binding site [chemical binding]; lipid-binding site 208963004286 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 208963004287 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 208963004288 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 208963004289 active site 208963004290 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 208963004291 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 208963004292 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 208963004293 RNA/DNA hybrid binding site [nucleotide binding]; other site 208963004294 active site 208963004295 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 208963004296 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 208963004297 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 208963004298 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 208963004299 putative active site [active] 208963004300 putative PHP Thumb interface [polypeptide binding]; other site 208963004301 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 208963004302 generic binding surface II; other site 208963004303 generic binding surface I; other site 208963004304 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 208963004305 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 208963004306 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 208963004307 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 208963004308 Ligand Binding Site [chemical binding]; other site 208963004309 TilS substrate binding domain; Region: TilS; pfam09179 208963004310 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 208963004311 CTP synthetase; Validated; Region: pyrG; PRK05380 208963004312 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 208963004313 Catalytic site [active] 208963004314 active site 208963004315 UTP binding site [chemical binding]; other site 208963004316 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 208963004317 active site 208963004318 putative oxyanion hole; other site 208963004319 catalytic triad [active] 208963004320 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 208963004321 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 208963004322 enolase; Provisional; Region: eno; PRK00077 208963004323 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 208963004324 dimer interface [polypeptide binding]; other site 208963004325 metal binding site [ion binding]; metal-binding site 208963004326 substrate binding pocket [chemical binding]; other site 208963004327 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 208963004328 Septum formation initiator; Region: DivIC; cl17659 208963004329 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 208963004330 substrate binding site; other site 208963004331 dimer interface; other site 208963004332 hypothetical protein; Provisional; Region: PRK11018 208963004333 CPxP motif; other site 208963004334 putative inner membrane protein; Provisional; Region: PRK11099 208963004335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963004336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963004337 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 208963004338 putative effector binding pocket; other site 208963004339 putative dimerization interface [polypeptide binding]; other site 208963004340 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 208963004341 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 208963004342 substrate binding site [chemical binding]; other site 208963004343 catalytic Zn binding site [ion binding]; other site 208963004344 NAD binding site [chemical binding]; other site 208963004345 structural Zn binding site [ion binding]; other site 208963004346 dimer interface [polypeptide binding]; other site 208963004347 S-formylglutathione hydrolase; Region: PLN02442 208963004348 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 208963004349 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 208963004350 homotrimer interaction site [polypeptide binding]; other site 208963004351 zinc binding site [ion binding]; other site 208963004352 CDP-binding sites; other site 208963004353 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 208963004354 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 208963004355 Permutation of conserved domain; other site 208963004356 active site 208963004357 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 208963004358 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 208963004359 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 208963004360 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 208963004361 S-adenosylmethionine binding site [chemical binding]; other site 208963004362 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963004363 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963004364 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 208963004365 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 208963004366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963004367 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 208963004368 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 208963004369 DNA binding residues [nucleotide binding] 208963004370 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 208963004371 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 208963004372 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 208963004373 MutS domain I; Region: MutS_I; pfam01624 208963004374 MutS domain II; Region: MutS_II; pfam05188 208963004375 MutS domain III; Region: MutS_III; pfam05192 208963004376 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 208963004377 Walker A/P-loop; other site 208963004378 ATP binding site [chemical binding]; other site 208963004379 Q-loop/lid; other site 208963004380 ABC transporter signature motif; other site 208963004381 Walker B; other site 208963004382 D-loop; other site 208963004383 H-loop/switch region; other site 208963004384 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 208963004385 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 208963004386 recombinase A; Provisional; Region: recA; PRK09354 208963004387 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 208963004388 hexamer interface [polypeptide binding]; other site 208963004389 Walker A motif; other site 208963004390 ATP binding site [chemical binding]; other site 208963004391 Walker B motif; other site 208963004392 recombination regulator RecX; Reviewed; Region: recX; PRK00117 208963004393 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 208963004394 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 208963004395 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 208963004396 Beta-Casp domain; Region: Beta-Casp; smart01027 208963004397 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 208963004398 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 208963004399 XFP N-terminal domain; Region: XFP_N; pfam09364 208963004400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 208963004401 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 208963004402 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 208963004403 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963004404 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 208963004405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963004406 dimer interface [polypeptide binding]; other site 208963004407 conserved gate region; other site 208963004408 putative PBP binding loops; other site 208963004409 ABC-ATPase subunit interface; other site 208963004410 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 208963004411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963004412 dimer interface [polypeptide binding]; other site 208963004413 conserved gate region; other site 208963004414 putative PBP binding loops; other site 208963004415 ABC-ATPase subunit interface; other site 208963004416 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 208963004417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963004418 Walker A/P-loop; other site 208963004419 ATP binding site [chemical binding]; other site 208963004420 Q-loop/lid; other site 208963004421 ABC transporter signature motif; other site 208963004422 Walker B; other site 208963004423 D-loop; other site 208963004424 H-loop/switch region; other site 208963004425 TOBE domain; Region: TOBE_2; pfam08402 208963004426 Uncharacterized conserved protein [Function unknown]; Region: COG3148 208963004427 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 208963004428 EamA-like transporter family; Region: EamA; pfam00892 208963004429 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963004430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963004431 active site 208963004432 phosphorylation site [posttranslational modification] 208963004433 intermolecular recognition site; other site 208963004434 dimerization interface [polypeptide binding]; other site 208963004435 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 208963004436 DNA binding residues [nucleotide binding] 208963004437 dimerization interface [polypeptide binding]; other site 208963004438 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 208963004439 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 208963004440 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 208963004441 active site 208963004442 FMN binding site [chemical binding]; other site 208963004443 substrate binding site [chemical binding]; other site 208963004444 3Fe-4S cluster binding site [ion binding]; other site 208963004445 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 208963004446 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 208963004447 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963004448 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 208963004449 DNA binding residues [nucleotide binding] 208963004450 dimerization interface [polypeptide binding]; other site 208963004451 Predicted amidohydrolase [General function prediction only]; Region: COG0388 208963004452 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 208963004453 putative active site [active] 208963004454 catalytic triad [active] 208963004455 putative dimer interface [polypeptide binding]; other site 208963004456 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 208963004457 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 208963004458 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 208963004459 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 208963004460 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 208963004461 DNA binding site [nucleotide binding] 208963004462 active site 208963004463 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963004464 metabolite-proton symporter; Region: 2A0106; TIGR00883 208963004465 putative substrate translocation pore; other site 208963004466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963004467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963004468 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 208963004469 putative dimerization interface [polypeptide binding]; other site 208963004470 putative substrate binding pocket [chemical binding]; other site 208963004471 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963004472 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 208963004473 active site 208963004474 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 208963004475 CoA-transferase family III; Region: CoA_transf_3; pfam02515 208963004476 enoyl-CoA hydratase; Provisional; Region: PRK08138 208963004477 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 208963004478 substrate binding site [chemical binding]; other site 208963004479 oxyanion hole (OAH) forming residues; other site 208963004480 trimer interface [polypeptide binding]; other site 208963004481 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 208963004482 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 208963004483 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963004484 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963004485 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 208963004486 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 208963004487 dimer interface [polypeptide binding]; other site 208963004488 active site 208963004489 outer membrane porin, OprD family; Region: OprD; pfam03573 208963004490 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 208963004491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963004492 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 208963004493 putative dimerization interface [polypeptide binding]; other site 208963004494 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963004495 GlpM protein; Region: GlpM; pfam06942 208963004496 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 208963004497 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 208963004498 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 208963004499 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 208963004500 glycerol kinase; Provisional; Region: glpK; PRK00047 208963004501 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 208963004502 N- and C-terminal domain interface [polypeptide binding]; other site 208963004503 active site 208963004504 MgATP binding site [chemical binding]; other site 208963004505 catalytic site [active] 208963004506 metal binding site [ion binding]; metal-binding site 208963004507 glycerol binding site [chemical binding]; other site 208963004508 homotetramer interface [polypeptide binding]; other site 208963004509 homodimer interface [polypeptide binding]; other site 208963004510 FBP binding site [chemical binding]; other site 208963004511 protein IIAGlc interface [polypeptide binding]; other site 208963004512 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 208963004513 amphipathic channel; other site 208963004514 Asn-Pro-Ala signature motifs; other site 208963004515 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 208963004516 putative deacylase active site [active] 208963004517 glycerol kinase; Region: glycerol_kin; TIGR01311 208963004518 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 208963004519 N- and C-terminal domain interface [polypeptide binding]; other site 208963004520 active site 208963004521 MgATP binding site [chemical binding]; other site 208963004522 catalytic site [active] 208963004523 metal binding site [ion binding]; metal-binding site 208963004524 glycerol binding site [chemical binding]; other site 208963004525 homotetramer interface [polypeptide binding]; other site 208963004526 homodimer interface [polypeptide binding]; other site 208963004527 FBP binding site [chemical binding]; other site 208963004528 protein IIAGlc interface [polypeptide binding]; other site 208963004529 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 208963004530 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 208963004531 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 208963004532 metal-binding site [ion binding] 208963004533 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 208963004534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963004535 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 208963004536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963004537 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 208963004538 putative substrate translocation pore; other site 208963004539 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963004540 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963004541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963004542 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 208963004543 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 208963004544 tetrameric interface [polypeptide binding]; other site 208963004545 NAD binding site [chemical binding]; other site 208963004546 catalytic residues [active] 208963004547 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 208963004548 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 208963004549 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 208963004550 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 208963004551 acyl-activating enzyme (AAE) consensus motif; other site 208963004552 putative AMP binding site [chemical binding]; other site 208963004553 putative active site [active] 208963004554 putative CoA binding site [chemical binding]; other site 208963004555 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 208963004556 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 208963004557 putative NAD(P) binding site [chemical binding]; other site 208963004558 dimer interface [polypeptide binding]; other site 208963004559 Uncharacterized conserved protein [Function unknown]; Region: COG1359 208963004560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963004561 transcriptional activator TtdR; Provisional; Region: PRK09801 208963004562 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 208963004563 putative effector binding pocket; other site 208963004564 dimerization interface [polypeptide binding]; other site 208963004565 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 208963004566 active site 208963004567 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 208963004568 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 208963004569 DNA binding site [nucleotide binding] 208963004570 domain linker motif; other site 208963004571 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 208963004572 dimerization interface [polypeptide binding]; other site 208963004573 ligand binding site [chemical binding]; other site 208963004574 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 208963004575 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 208963004576 active site 208963004577 phosphorylation site [posttranslational modification] 208963004578 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 208963004579 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 208963004580 dimerization domain swap beta strand [polypeptide binding]; other site 208963004581 regulatory protein interface [polypeptide binding]; other site 208963004582 active site 208963004583 regulatory phosphorylation site [posttranslational modification]; other site 208963004584 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 208963004585 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 208963004586 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 208963004587 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 208963004588 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 208963004589 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 208963004590 putative substrate binding site [chemical binding]; other site 208963004591 putative ATP binding site [chemical binding]; other site 208963004592 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 208963004593 active site 208963004594 P-loop; other site 208963004595 phosphorylation site [posttranslational modification] 208963004596 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 208963004597 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 208963004598 active site 208963004599 P-loop; other site 208963004600 phosphorylation site [posttranslational modification] 208963004601 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 208963004602 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 208963004603 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 208963004604 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 208963004605 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 208963004606 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 208963004607 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 208963004608 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 208963004609 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 208963004610 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 208963004611 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 208963004612 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 208963004613 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 208963004614 active site 208963004615 substrate binding site [chemical binding]; other site 208963004616 cosubstrate binding site; other site 208963004617 catalytic site [active] 208963004618 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 208963004619 active site 208963004620 hexamer interface [polypeptide binding]; other site 208963004621 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 208963004622 NAD binding site [chemical binding]; other site 208963004623 substrate binding site [chemical binding]; other site 208963004624 active site 208963004625 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 208963004626 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 208963004627 Ligand binding site; other site 208963004628 Putative Catalytic site; other site 208963004629 DXD motif; other site 208963004630 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 208963004631 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 208963004632 inhibitor-cofactor binding pocket; inhibition site 208963004633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963004634 catalytic residue [active] 208963004635 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 208963004636 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 208963004637 Substrate binding site; other site 208963004638 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 208963004639 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 208963004640 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 208963004641 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 208963004642 active site 208963004643 Right handed beta helix region; Region: Beta_helix; pfam13229 208963004644 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 208963004645 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963004646 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963004647 Sel1-like repeats; Region: SEL1; smart00671 208963004648 PilZ domain; Region: PilZ; pfam07238 208963004649 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963004650 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 208963004651 active site 208963004652 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 208963004653 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 208963004654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963004655 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 208963004656 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 208963004657 hypothetical protein; Validated; Region: PRK02101 208963004658 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 208963004659 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 208963004660 Walker A/P-loop; other site 208963004661 ATP binding site [chemical binding]; other site 208963004662 Q-loop/lid; other site 208963004663 ABC transporter signature motif; other site 208963004664 Walker B; other site 208963004665 D-loop; other site 208963004666 H-loop/switch region; other site 208963004667 TOBE domain; Region: TOBE_2; pfam08402 208963004668 ornithine carbamoyltransferase; Provisional; Region: PRK00779 208963004669 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 208963004670 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 208963004671 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 208963004672 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 208963004673 catalytic triad [active] 208963004674 putative active site [active] 208963004675 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 208963004676 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 208963004677 Autotransporter beta-domain; Region: Autotransporter; smart00869 208963004678 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 208963004679 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 208963004680 putative [Fe4-S4] binding site [ion binding]; other site 208963004681 putative molybdopterin cofactor binding site [chemical binding]; other site 208963004682 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 208963004683 putative molybdopterin cofactor binding site; other site 208963004684 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 208963004685 putative GSH binding site [chemical binding]; other site 208963004686 catalytic residues [active] 208963004687 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963004688 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 208963004689 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 208963004690 heme binding site [chemical binding]; other site 208963004691 ferroxidase pore; other site 208963004692 ferroxidase diiron center [ion binding]; other site 208963004693 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 208963004694 peroxidase; Provisional; Region: PRK15000 208963004695 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 208963004696 dimer interface [polypeptide binding]; other site 208963004697 decamer (pentamer of dimers) interface [polypeptide binding]; other site 208963004698 catalytic triad [active] 208963004699 peroxidatic and resolving cysteines [active] 208963004700 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 208963004701 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 208963004702 dimer interface [polypeptide binding]; other site 208963004703 catalytic site [active] 208963004704 putative active site [active] 208963004705 putative substrate binding site [chemical binding]; other site 208963004706 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 208963004707 active site 208963004708 substrate binding pocket [chemical binding]; other site 208963004709 dimer interface [polypeptide binding]; other site 208963004710 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963004711 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963004712 ligand binding site [chemical binding]; other site 208963004713 argininosuccinate synthase; Provisional; Region: PRK13820 208963004714 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 208963004715 ANP binding site [chemical binding]; other site 208963004716 Substrate Binding Site II [chemical binding]; other site 208963004717 Substrate Binding Site I [chemical binding]; other site 208963004718 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963004719 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 208963004720 dimer interface [polypeptide binding]; other site 208963004721 active site 208963004722 metal binding site [ion binding]; metal-binding site 208963004723 glutathione binding site [chemical binding]; other site 208963004724 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963004725 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963004726 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963004727 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 208963004728 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963004729 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 208963004730 metal-binding site [ion binding] 208963004731 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 208963004732 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 208963004733 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 208963004734 tetramer interface [polypeptide binding]; other site 208963004735 active site 208963004736 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 208963004737 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 208963004738 tetramer interface [polypeptide binding]; other site 208963004739 active site 208963004740 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963004741 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 208963004742 S-adenosylmethionine binding site [chemical binding]; other site 208963004743 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 208963004744 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 208963004745 minor groove reading motif; other site 208963004746 helix-hairpin-helix signature motif; other site 208963004747 substrate binding pocket [chemical binding]; other site 208963004748 active site 208963004749 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 208963004750 electron transport complex RsxE subunit; Provisional; Region: PRK12405 208963004751 Predicted NADH:ubiquinone oxidoreductase, subunit RnfG [Energy production and conversion]; Region: RnfG; COG4659 208963004752 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 208963004753 electron transport complex protein RnfC; Provisional; Region: PRK05035 208963004754 SLBB domain; Region: SLBB; pfam10531 208963004755 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 208963004756 electron transport complex protein RnfB; Provisional; Region: PRK05113 208963004757 Putative Fe-S cluster; Region: FeS; pfam04060 208963004758 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 208963004759 electron transport complex protein RsxA; Provisional; Region: PRK05151 208963004760 Catalytic domain, repeat 1, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_1; cd09104 208963004761 putative active site [active] 208963004762 catalytic site [active] 208963004763 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 208963004764 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 208963004765 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, yeast PLDs, and similar proteins; Region: PLDc_vPLD1_2_yPLD_like_2; cd09141 208963004766 putative active site [active] 208963004767 catalytic site [active] 208963004768 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963004769 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963004770 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963004771 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 208963004772 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 208963004773 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 208963004774 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 208963004775 active site 208963004776 HIGH motif; other site 208963004777 KMSKS motif; other site 208963004778 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 208963004779 tRNA binding surface [nucleotide binding]; other site 208963004780 anticodon binding site; other site 208963004781 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 208963004782 putative tRNA-binding site [nucleotide binding]; other site 208963004783 dimer interface [polypeptide binding]; other site 208963004784 antiporter inner membrane protein; Provisional; Region: PRK11670 208963004785 Domain of unknown function DUF59; Region: DUF59; pfam01883 208963004786 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 208963004787 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 208963004788 trimer interface [polypeptide binding]; other site 208963004789 active site 208963004790 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963004791 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 208963004792 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 208963004793 homodimer interface [polypeptide binding]; other site 208963004794 active site 208963004795 TDP-binding site; other site 208963004796 acceptor substrate-binding pocket; other site 208963004797 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 208963004798 Autoinducer binding domain; Region: Autoind_bind; pfam03472 208963004799 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 208963004800 DNA binding residues [nucleotide binding] 208963004801 dimerization interface [polypeptide binding]; other site 208963004802 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 208963004803 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 208963004804 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 208963004805 substrate binding pocket [chemical binding]; other site 208963004806 membrane-bound complex binding site; other site 208963004807 hinge residues; other site 208963004808 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 208963004809 Predicted permeases [General function prediction only]; Region: RarD; COG2962 208963004810 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 208963004811 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 208963004812 NlpC/P60 family; Region: NLPC_P60; pfam00877 208963004813 malate dehydrogenase; Provisional; Region: PRK13529 208963004814 Malic enzyme, N-terminal domain; Region: malic; pfam00390 208963004815 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 208963004816 NAD(P) binding site [chemical binding]; other site 208963004817 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 208963004818 nudix motif; other site 208963004819 RibD C-terminal domain; Region: RibD_C; cl17279 208963004820 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 208963004821 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 208963004822 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963004823 benzoate transport; Region: 2A0115; TIGR00895 208963004824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963004825 putative substrate translocation pore; other site 208963004826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963004827 helicase 45; Provisional; Region: PTZ00424 208963004828 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 208963004829 ATP binding site [chemical binding]; other site 208963004830 Mg++ binding site [ion binding]; other site 208963004831 motif III; other site 208963004832 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 208963004833 nucleotide binding region [chemical binding]; other site 208963004834 ATP-binding site [chemical binding]; other site 208963004835 Transmembrane secretion effector; Region: MFS_3; pfam05977 208963004836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963004837 putative substrate translocation pore; other site 208963004838 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 208963004839 hypothetical protein; Provisional; Region: PRK00304 208963004840 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 208963004841 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 208963004842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963004843 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 208963004844 dimer interface [polypeptide binding]; other site 208963004845 phosphorylation site [posttranslational modification] 208963004846 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963004847 ATP binding site [chemical binding]; other site 208963004848 Mg2+ binding site [ion binding]; other site 208963004849 G-X-G motif; other site 208963004850 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963004851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963004852 active site 208963004853 phosphorylation site [posttranslational modification] 208963004854 intermolecular recognition site; other site 208963004855 dimerization interface [polypeptide binding]; other site 208963004856 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 208963004857 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 208963004858 putative oligomer interface [polypeptide binding]; other site 208963004859 putative active site [active] 208963004860 metal binding site [ion binding]; metal-binding site 208963004861 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 208963004862 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963004863 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963004864 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 208963004865 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 208963004866 active site 208963004867 dimer interface [polypeptide binding]; other site 208963004868 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 208963004869 Ligand Binding Site [chemical binding]; other site 208963004870 Molecular Tunnel; other site 208963004871 MarR family; Region: MarR_2; cl17246 208963004872 Predicted permeases [General function prediction only]; Region: COG0730 208963004873 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 208963004874 Uncharacterized conserved protein [Function unknown]; Region: COG4121 208963004875 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 208963004876 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 208963004877 Uncharacterized conserved protein [Function unknown]; Region: COG2326 208963004878 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 208963004879 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 208963004880 dimer interface [polypeptide binding]; other site 208963004881 active site 208963004882 Protein of unknown function, DUF480; Region: DUF480; cl01209 208963004883 malate:quinone oxidoreductase; Validated; Region: PRK05257 208963004884 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 208963004885 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 208963004886 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 208963004887 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 208963004888 dimer interface [polypeptide binding]; other site 208963004889 decamer (pentamer of dimers) interface [polypeptide binding]; other site 208963004890 catalytic triad [active] 208963004891 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 208963004892 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 208963004893 substrate binding pocket [chemical binding]; other site 208963004894 membrane-bound complex binding site; other site 208963004895 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 208963004896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963004897 dimer interface [polypeptide binding]; other site 208963004898 conserved gate region; other site 208963004899 putative PBP binding loops; other site 208963004900 ABC-ATPase subunit interface; other site 208963004901 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 208963004902 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 208963004903 Walker A/P-loop; other site 208963004904 ATP binding site [chemical binding]; other site 208963004905 Q-loop/lid; other site 208963004906 ABC transporter signature motif; other site 208963004907 Walker B; other site 208963004908 D-loop; other site 208963004909 H-loop/switch region; other site 208963004910 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 208963004911 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963004912 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 208963004913 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 208963004914 substrate binding pocket [chemical binding]; other site 208963004915 membrane-bound complex binding site; other site 208963004916 hinge residues; other site 208963004917 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 208963004918 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 208963004919 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 208963004920 active site 208963004921 dimer interface [polypeptide binding]; other site 208963004922 non-prolyl cis peptide bond; other site 208963004923 insertion regions; other site 208963004924 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 208963004925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963004926 dimer interface [polypeptide binding]; other site 208963004927 conserved gate region; other site 208963004928 putative PBP binding loops; other site 208963004929 ABC-ATPase subunit interface; other site 208963004930 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 208963004931 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963004932 Walker A/P-loop; other site 208963004933 ATP binding site [chemical binding]; other site 208963004934 Q-loop/lid; other site 208963004935 ABC transporter signature motif; other site 208963004936 Walker B; other site 208963004937 D-loop; other site 208963004938 H-loop/switch region; other site 208963004939 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 208963004940 HopJ type III effector protein; Region: HopJ; pfam08888 208963004941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 208963004942 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 208963004943 homooctamer interface [polypeptide binding]; other site 208963004944 active site 208963004945 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 208963004946 homodecamer interface [polypeptide binding]; other site 208963004947 GTP cyclohydrolase I; Provisional; Region: PLN03044 208963004948 active site 208963004949 putative catalytic site residues [active] 208963004950 zinc binding site [ion binding]; other site 208963004951 GTP-CH-I/GFRP interaction surface; other site 208963004952 dihydromonapterin reductase; Provisional; Region: PRK06483 208963004953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963004954 NAD(P) binding site [chemical binding]; other site 208963004955 active site 208963004956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 208963004957 flavodoxin; Provisional; Region: PRK05723 208963004958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963004959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963004960 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 208963004961 putative dimerization interface [polypeptide binding]; other site 208963004962 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 208963004963 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 208963004964 aldolase II superfamily protein; Provisional; Region: PRK07044 208963004965 intersubunit interface [polypeptide binding]; other site 208963004966 active site 208963004967 Zn2+ binding site [ion binding]; other site 208963004968 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963004969 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 208963004970 homodimer interface [polypeptide binding]; other site 208963004971 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 208963004972 NAD binding site [chemical binding]; other site 208963004973 active site 208963004974 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 208963004975 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 208963004976 substrate binding site [chemical binding]; other site 208963004977 oxyanion hole (OAH) forming residues; other site 208963004978 trimer interface [polypeptide binding]; other site 208963004979 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 208963004980 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963004981 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963004982 SnoaL-like domain; Region: SnoaL_2; pfam12680 208963004983 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963004984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963004985 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 208963004986 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 208963004987 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 208963004988 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 208963004989 DNA binding residues [nucleotide binding] 208963004990 dimerization interface [polypeptide binding]; other site 208963004991 Uncharacterized conserved protein [Function unknown]; Region: COG2912 208963004992 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 208963004993 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 208963004994 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 208963004995 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 208963004996 NAD binding site [chemical binding]; other site 208963004997 Phe binding site; other site 208963004998 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 208963004999 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 208963005000 TPP-binding site [chemical binding]; other site 208963005001 tetramer interface [polypeptide binding]; other site 208963005002 heterodimer interface [polypeptide binding]; other site 208963005003 phosphorylation loop region [posttranslational modification] 208963005004 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 208963005005 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 208963005006 alpha subunit interface [polypeptide binding]; other site 208963005007 TPP binding site [chemical binding]; other site 208963005008 heterodimer interface [polypeptide binding]; other site 208963005009 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 208963005010 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 208963005011 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 208963005012 E3 interaction surface; other site 208963005013 lipoyl attachment site [posttranslational modification]; other site 208963005014 e3 binding domain; Region: E3_binding; pfam02817 208963005015 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 208963005016 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 208963005017 DNA damage-inducible gene in SOS regulon, dependent on cyclic AMP and H-NS , pqiA [General function prediction only]; Region: COG3141 208963005018 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 208963005019 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 208963005020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963005021 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 208963005022 DNA binding residues [nucleotide binding] 208963005023 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963005024 FecR protein; Region: FecR; pfam04773 208963005025 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963005026 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 208963005027 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 208963005028 N-terminal plug; other site 208963005029 ligand-binding site [chemical binding]; other site 208963005030 Heme-binding protein A (HasA); Region: HasA; pfam06438 208963005031 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 208963005032 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 208963005033 Walker A/P-loop; other site 208963005034 ATP binding site [chemical binding]; other site 208963005035 Q-loop/lid; other site 208963005036 ABC transporter signature motif; other site 208963005037 Walker B; other site 208963005038 D-loop; other site 208963005039 H-loop/switch region; other site 208963005040 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 208963005041 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963005042 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963005043 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 208963005044 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 208963005045 Predicted membrane protein [Function unknown]; Region: COG3223 208963005046 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963005047 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963005048 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 208963005049 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 208963005050 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 208963005051 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 208963005052 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 208963005053 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 208963005054 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 208963005055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963005056 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 208963005057 putative dimerization interface [polypeptide binding]; other site 208963005058 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 208963005059 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 208963005060 FAD binding pocket [chemical binding]; other site 208963005061 FAD binding motif [chemical binding]; other site 208963005062 phosphate binding motif [ion binding]; other site 208963005063 beta-alpha-beta structure motif; other site 208963005064 NAD binding pocket [chemical binding]; other site 208963005065 NosL; Region: NosL; cl01769 208963005066 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 208963005067 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 208963005068 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 208963005069 Walker A/P-loop; other site 208963005070 ATP binding site [chemical binding]; other site 208963005071 Q-loop/lid; other site 208963005072 ABC transporter signature motif; other site 208963005073 Walker B; other site 208963005074 D-loop; other site 208963005075 H-loop/switch region; other site 208963005076 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 208963005077 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 208963005078 nitrous-oxide reductase; Validated; Region: PRK02888 208963005079 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 208963005080 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 208963005081 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 208963005082 4Fe-4S binding domain; Region: Fer4_5; pfam12801 208963005083 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 208963005084 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963005085 active site 208963005086 metal binding site [ion binding]; metal-binding site 208963005087 Uncharacterized conserved protein [Function unknown]; Region: COG1359 208963005088 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 208963005089 homodimer interaction site [polypeptide binding]; other site 208963005090 cofactor binding site; other site 208963005091 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 208963005092 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 208963005093 NADP binding site [chemical binding]; other site 208963005094 active site 208963005095 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 208963005096 Arc-like DNA binding domain; Region: Arc; pfam03869 208963005097 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 208963005098 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 208963005099 Walker A/P-loop; other site 208963005100 ATP binding site [chemical binding]; other site 208963005101 Q-loop/lid; other site 208963005102 ABC transporter signature motif; other site 208963005103 Walker B; other site 208963005104 D-loop; other site 208963005105 H-loop/switch region; other site 208963005106 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 208963005107 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 208963005108 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963005109 dimer interface [polypeptide binding]; other site 208963005110 conserved gate region; other site 208963005111 ABC-ATPase subunit interface; other site 208963005112 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 208963005113 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963005114 DNA-binding site [nucleotide binding]; DNA binding site 208963005115 UTRA domain; Region: UTRA; pfam07702 208963005116 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 208963005117 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 208963005118 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 208963005119 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 208963005120 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 208963005121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963005122 Walker A/P-loop; other site 208963005123 ATP binding site [chemical binding]; other site 208963005124 Q-loop/lid; other site 208963005125 ABC transporter signature motif; other site 208963005126 Walker B; other site 208963005127 D-loop; other site 208963005128 H-loop/switch region; other site 208963005129 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 208963005130 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 208963005131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963005132 Walker A/P-loop; other site 208963005133 ATP binding site [chemical binding]; other site 208963005134 Q-loop/lid; other site 208963005135 ABC transporter signature motif; other site 208963005136 Walker B; other site 208963005137 D-loop; other site 208963005138 H-loop/switch region; other site 208963005139 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 208963005140 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 208963005141 active site 208963005142 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 208963005143 Guanylate kinase; Region: Guanylate_kin; pfam00625 208963005144 active site 208963005145 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 208963005146 putative hydrolase; Provisional; Region: PRK02113 208963005147 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 208963005148 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963005149 Coenzyme A binding pocket [chemical binding]; other site 208963005150 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963005151 RHS Repeat; Region: RHS_repeat; pfam05593 208963005152 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963005153 RHS Repeat; Region: RHS_repeat; pfam05593 208963005154 RHS Repeat; Region: RHS_repeat; pfam05593 208963005155 RHS Repeat; Region: RHS_repeat; pfam05593 208963005156 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 208963005157 RHS Repeat; Region: RHS_repeat; pfam05593 208963005158 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 208963005159 hypothetical protein; Provisional; Region: PRK10040 208963005160 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 208963005161 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 208963005162 multimer interface [polypeptide binding]; other site 208963005163 active site 208963005164 catalytic triad [active] 208963005165 dimer interface [polypeptide binding]; other site 208963005166 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 208963005167 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 208963005168 Walker A motif; other site 208963005169 ATP binding site [chemical binding]; other site 208963005170 Walker B motif; other site 208963005171 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 208963005172 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 208963005173 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 208963005174 ligand binding site [chemical binding]; other site 208963005175 regulator interaction site; other site 208963005176 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 208963005177 ANTAR domain; Region: ANTAR; pfam03861 208963005178 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 208963005179 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 208963005180 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 208963005181 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963005182 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963005183 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 208963005184 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 208963005185 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 208963005186 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963005187 catalytic residue [active] 208963005188 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 208963005189 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963005190 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963005191 putative substrate translocation pore; other site 208963005192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3222 208963005193 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 208963005194 Flagellar regulator YcgR; Region: YcgR; pfam07317 208963005195 PilZ domain; Region: PilZ; pfam07238 208963005196 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 208963005197 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 208963005198 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 208963005199 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 208963005200 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 208963005201 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 208963005202 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963005203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963005204 active site 208963005205 phosphorylation site [posttranslational modification] 208963005206 intermolecular recognition site; other site 208963005207 dimerization interface [polypeptide binding]; other site 208963005208 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 208963005209 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 208963005210 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 208963005211 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 208963005212 anti sigma factor interaction site; other site 208963005213 regulatory phosphorylation site [posttranslational modification]; other site 208963005214 Response regulator receiver domain; Region: Response_reg; pfam00072 208963005215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963005216 active site 208963005217 phosphorylation site [posttranslational modification] 208963005218 intermolecular recognition site; other site 208963005219 dimerization interface [polypeptide binding]; other site 208963005220 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 208963005221 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 208963005222 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 208963005223 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 208963005224 putative binding surface; other site 208963005225 active site 208963005226 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 208963005227 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 208963005228 ATP binding site [chemical binding]; other site 208963005229 putative Mg++ binding site [ion binding]; other site 208963005230 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 208963005231 nucleotide binding region [chemical binding]; other site 208963005232 ATP-binding site [chemical binding]; other site 208963005233 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 208963005234 HRDC domain; Region: HRDC; pfam00570 208963005235 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963005236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963005237 metal binding site [ion binding]; metal-binding site 208963005238 active site 208963005239 I-site; other site 208963005240 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 208963005241 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 208963005242 MarR family; Region: MarR_2; pfam12802 208963005243 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 208963005244 FimV N-terminal domain; Region: FimV_core; TIGR03505 208963005245 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 208963005246 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 208963005247 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 208963005248 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 208963005249 active site 208963005250 nucleophile elbow; other site 208963005251 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 208963005252 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 208963005253 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 208963005254 Surface antigen; Region: Bac_surface_Ag; pfam01103 208963005255 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 208963005256 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 208963005257 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 208963005258 NADP binding site [chemical binding]; other site 208963005259 homopentamer interface [polypeptide binding]; other site 208963005260 substrate binding site [chemical binding]; other site 208963005261 active site 208963005262 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 208963005263 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 208963005264 S-adenosylmethionine binding site [chemical binding]; other site 208963005265 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 208963005266 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 208963005267 dimer interface [polypeptide binding]; other site 208963005268 active site 208963005269 CoA binding pocket [chemical binding]; other site 208963005270 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 208963005271 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 208963005272 Cytochrome P450; Region: p450; cl12078 208963005273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963005274 short chain dehydrogenase; Provisional; Region: PRK06914 208963005275 NAD(P) binding site [chemical binding]; other site 208963005276 active site 208963005277 Condensation domain; Region: Condensation; pfam00668 208963005278 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 208963005279 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 208963005280 Condensation domain; Region: Condensation; pfam00668 208963005281 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963005282 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963005283 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963005284 acyl-activating enzyme (AAE) consensus motif; other site 208963005285 AMP binding site [chemical binding]; other site 208963005286 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963005287 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 208963005288 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963005289 acyl-activating enzyme (AAE) consensus motif; other site 208963005290 AMP binding site [chemical binding]; other site 208963005291 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963005292 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 208963005293 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 208963005294 oligomer interface [polypeptide binding]; other site 208963005295 active site residues [active] 208963005296 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 208963005297 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 208963005298 short chain dehydrogenase; Validated; Region: PRK05855 208963005299 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963005300 classical (c) SDRs; Region: SDR_c; cd05233 208963005301 NAD(P) binding site [chemical binding]; other site 208963005302 active site 208963005303 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 208963005304 active site 208963005305 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 208963005306 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 208963005307 DNA binding residues [nucleotide binding] 208963005308 putative dimer interface [polypeptide binding]; other site 208963005309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963005310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963005311 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 208963005312 putative substrate binding pocket [chemical binding]; other site 208963005313 putative dimerization interface [polypeptide binding]; other site 208963005314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 208963005315 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 208963005316 Phosphoesterase family; Region: Phosphoesterase; pfam04185 208963005317 Domain of unknown function (DUF756); Region: DUF756; pfam05506 208963005318 Domain of unknown function (DUF756); Region: DUF756; pfam05506 208963005319 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 208963005320 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 208963005321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963005322 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 208963005323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963005324 Walker A/P-loop; other site 208963005325 ATP binding site [chemical binding]; other site 208963005326 Q-loop/lid; other site 208963005327 ABC transporter signature motif; other site 208963005328 Walker B; other site 208963005329 D-loop; other site 208963005330 H-loop/switch region; other site 208963005331 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 208963005332 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 208963005333 substrate binding pocket [chemical binding]; other site 208963005334 membrane-bound complex binding site; other site 208963005335 hinge residues; other site 208963005336 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 208963005337 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 208963005338 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 208963005339 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 208963005340 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 208963005341 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963005342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963005343 metal binding site [ion binding]; metal-binding site 208963005344 active site 208963005345 I-site; other site 208963005346 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 208963005347 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 208963005348 Sulfatase; Region: Sulfatase; pfam00884 208963005349 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 208963005350 Ligand Binding Site [chemical binding]; other site 208963005351 ATP-dependent helicase HepA; Validated; Region: PRK04914 208963005352 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 208963005353 ATP binding site [chemical binding]; other site 208963005354 putative Mg++ binding site [ion binding]; other site 208963005355 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 208963005356 nucleotide binding region [chemical binding]; other site 208963005357 ATP-binding site [chemical binding]; other site 208963005358 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 208963005359 Fusaric acid resistance protein family; Region: FUSC; pfam04632 208963005360 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 208963005361 HlyD family secretion protein; Region: HlyD; pfam00529 208963005362 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963005363 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963005364 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 208963005365 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 208963005366 (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 208963005367 dimer interaction site [polypeptide binding]; other site 208963005368 substrate-binding tunnel; other site 208963005369 active site 208963005370 catalytic site [active] 208963005371 substrate binding site [chemical binding]; other site 208963005372 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 208963005373 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963005374 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963005375 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 208963005376 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 208963005377 acyl-activating enzyme (AAE) consensus motif; other site 208963005378 putative AMP binding site [chemical binding]; other site 208963005379 putative active site [active] 208963005380 putative CoA binding site [chemical binding]; other site 208963005381 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 208963005382 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 208963005383 acyl-activating enzyme (AAE) consensus motif; other site 208963005384 putative AMP binding site [chemical binding]; other site 208963005385 putative active site [active] 208963005386 putative CoA binding site [chemical binding]; other site 208963005387 Putative addiction module component; Region: Unstab_antitox; cl09921 208963005388 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 208963005389 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 208963005390 ATP binding site [chemical binding]; other site 208963005391 putative Mg++ binding site [ion binding]; other site 208963005392 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 208963005393 nucleotide binding region [chemical binding]; other site 208963005394 ATP-binding site [chemical binding]; other site 208963005395 Helicase associated domain (HA2); Region: HA2; pfam04408 208963005396 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 208963005397 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 208963005398 alkaline phosphatase; Provisional; Region: PRK10518 208963005399 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 208963005400 active site 208963005401 dimer interface [polypeptide binding]; other site 208963005402 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 208963005403 HIT family signature motif; other site 208963005404 catalytic residue [active] 208963005405 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963005406 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963005407 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963005408 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 208963005409 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 208963005410 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 208963005411 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 208963005412 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 208963005413 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 208963005414 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 208963005415 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 208963005416 Isochorismatase family; Region: Isochorismatase; pfam00857 208963005417 catalytic triad [active] 208963005418 conserved cis-peptide bond; other site 208963005419 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 208963005420 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 208963005421 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 208963005422 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 208963005423 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 208963005424 dimer interface [polypeptide binding]; other site 208963005425 active site 208963005426 CoA binding pocket [chemical binding]; other site 208963005427 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 208963005428 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963005429 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 208963005430 DNA binding residues [nucleotide binding] 208963005431 Putative zinc-finger; Region: zf-HC2; pfam13490 208963005432 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 208963005433 Protein of unknown function (DUF692); Region: DUF692; pfam05114 208963005434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 208963005435 Predicted membrane protein [Function unknown]; Region: COG2259 208963005436 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 208963005437 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 208963005438 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 208963005439 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 208963005440 short chain dehydrogenase; Provisional; Region: PRK05650 208963005441 classical (c) SDRs; Region: SDR_c; cd05233 208963005442 NAD(P) binding site [chemical binding]; other site 208963005443 active site 208963005444 Uncharacterized conserved protein [Function unknown]; Region: COG1742 208963005445 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 208963005446 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 208963005447 ATP binding site [chemical binding]; other site 208963005448 putative Mg++ binding site [ion binding]; other site 208963005449 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 208963005450 nucleotide binding region [chemical binding]; other site 208963005451 ATP-binding site [chemical binding]; other site 208963005452 DEAD/H associated; Region: DEAD_assoc; pfam08494 208963005453 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 208963005454 Na binding site [ion binding]; other site 208963005455 PAS fold; Region: PAS_7; pfam12860 208963005456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963005457 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 208963005458 dimer interface [polypeptide binding]; other site 208963005459 phosphorylation site [posttranslational modification] 208963005460 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963005461 ATP binding site [chemical binding]; other site 208963005462 Mg2+ binding site [ion binding]; other site 208963005463 G-X-G motif; other site 208963005464 Response regulator receiver domain; Region: Response_reg; pfam00072 208963005465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963005466 active site 208963005467 phosphorylation site [posttranslational modification] 208963005468 intermolecular recognition site; other site 208963005469 dimerization interface [polypeptide binding]; other site 208963005470 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 208963005471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 208963005472 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963005473 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963005474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963005475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963005476 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 208963005477 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 208963005478 N-terminal plug; other site 208963005479 ligand-binding site [chemical binding]; other site 208963005480 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963005481 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963005482 putative substrate translocation pore; other site 208963005483 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 208963005484 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 208963005485 putative acyl-acceptor binding pocket; other site 208963005486 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 208963005487 DNA-binding site [nucleotide binding]; DNA binding site 208963005488 RNA-binding motif; other site 208963005489 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 208963005490 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 208963005491 Sodium Bile acid symporter family; Region: SBF; pfam01758 208963005492 recombination associated protein; Reviewed; Region: rdgC; PRK00321 208963005493 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 208963005494 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 208963005495 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 208963005496 Uncharacterized conserved protein [Function unknown]; Region: COG3339 208963005497 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 208963005498 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 208963005499 substrate binding pocket [chemical binding]; other site 208963005500 membrane-bound complex binding site; other site 208963005501 hinge residues; other site 208963005502 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 208963005503 non-specific DNA binding site [nucleotide binding]; other site 208963005504 salt bridge; other site 208963005505 sequence-specific DNA binding site [nucleotide binding]; other site 208963005506 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 208963005507 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 208963005508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963005509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963005510 metal binding site [ion binding]; metal-binding site 208963005511 active site 208963005512 I-site; other site 208963005513 carboxy-terminal protease; Provisional; Region: PRK11186 208963005514 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 208963005515 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 208963005516 protein binding site [polypeptide binding]; other site 208963005517 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 208963005518 Catalytic dyad [active] 208963005519 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 208963005520 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 208963005521 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 208963005522 NAD(P) binding site [chemical binding]; other site 208963005523 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 208963005524 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 208963005525 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 208963005526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963005527 Walker A/P-loop; other site 208963005528 ATP binding site [chemical binding]; other site 208963005529 Q-loop/lid; other site 208963005530 ABC transporter signature motif; other site 208963005531 Walker B; other site 208963005532 D-loop; other site 208963005533 H-loop/switch region; other site 208963005534 TOBE domain; Region: TOBE_2; pfam08402 208963005535 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 208963005536 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963005537 dimer interface [polypeptide binding]; other site 208963005538 conserved gate region; other site 208963005539 putative PBP binding loops; other site 208963005540 ABC-ATPase subunit interface; other site 208963005541 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 208963005542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963005543 dimer interface [polypeptide binding]; other site 208963005544 conserved gate region; other site 208963005545 putative PBP binding loops; other site 208963005546 ABC-ATPase subunit interface; other site 208963005547 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 208963005548 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 208963005549 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 208963005550 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963005551 DNA-binding site [nucleotide binding]; DNA binding site 208963005552 transcriptional regulator protein; Region: phnR; TIGR03337 208963005553 UTRA domain; Region: UTRA; pfam07702 208963005554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 208963005555 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 208963005556 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 208963005557 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 208963005558 active site 208963005559 metal binding site [ion binding]; metal-binding site 208963005560 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 208963005561 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 208963005562 active site 208963005563 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 208963005564 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 208963005565 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 208963005566 Switch I; other site 208963005567 Switch II; other site 208963005568 septum formation inhibitor; Reviewed; Region: minC; PRK00339 208963005569 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 208963005570 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 208963005571 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 208963005572 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 208963005573 putative acyl-acceptor binding pocket; other site 208963005574 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 208963005575 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 208963005576 active site 208963005577 nucleophile elbow; other site 208963005578 Pirin-related protein [General function prediction only]; Region: COG1741 208963005579 Pirin; Region: Pirin; pfam02678 208963005580 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 208963005581 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 208963005582 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 208963005583 catalytic residues [active] 208963005584 catalytic nucleophile [active] 208963005585 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 208963005586 tape measure domain; Region: tape_meas_nterm; TIGR02675 208963005587 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 208963005588 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 208963005589 catalytic residues [active] 208963005590 catalytic nucleophile [active] 208963005591 Recombinase; Region: Recombinase; pfam07508 208963005592 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 208963005593 Pirin; Region: Pirin; pfam02678 208963005594 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 208963005595 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963005596 Predicted membrane protein [Function unknown]; Region: COG3205 208963005597 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 208963005598 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 208963005599 Predicted membrane protein [Function unknown]; Region: COG3162 208963005600 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 208963005601 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 208963005602 Na binding site [ion binding]; other site 208963005603 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 208963005604 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 208963005605 ligand binding site [chemical binding]; other site 208963005606 flexible hinge region; other site 208963005607 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 208963005608 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 208963005609 metal binding triad; other site 208963005610 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 208963005611 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 208963005612 active site 208963005613 catalytic site [active] 208963005614 substrate binding site [chemical binding]; other site 208963005615 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 208963005616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 208963005617 Protein of unknown function, DUF482; Region: DUF482; pfam04339 208963005618 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 208963005619 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 208963005620 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963005621 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 208963005622 Walker A/P-loop; other site 208963005623 ATP binding site [chemical binding]; other site 208963005624 Q-loop/lid; other site 208963005625 ABC transporter signature motif; other site 208963005626 Walker B; other site 208963005627 D-loop; other site 208963005628 H-loop/switch region; other site 208963005629 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 208963005630 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 208963005631 substrate binding site [chemical binding]; other site 208963005632 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963005633 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 208963005634 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 208963005635 catalytic site [active] 208963005636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963005637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963005638 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 208963005639 dimerization interface [polypeptide binding]; other site 208963005640 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 208963005641 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963005642 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 208963005643 catalytic residues [active] 208963005644 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 208963005645 lipoyl attachment site [posttranslational modification]; other site 208963005646 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 208963005647 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 208963005648 NADP binding site [chemical binding]; other site 208963005649 glutathionine S-transferase; Provisional; Region: PRK10542 208963005650 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 208963005651 C-terminal domain interface [polypeptide binding]; other site 208963005652 GSH binding site (G-site) [chemical binding]; other site 208963005653 dimer interface [polypeptide binding]; other site 208963005654 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 208963005655 dimer interface [polypeptide binding]; other site 208963005656 N-terminal domain interface [polypeptide binding]; other site 208963005657 substrate binding pocket (H-site) [chemical binding]; other site 208963005658 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 208963005659 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963005660 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 208963005661 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 208963005662 putative effector binding pocket; other site 208963005663 putative dimerization interface [polypeptide binding]; other site 208963005664 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 208963005665 EamA-like transporter family; Region: EamA; pfam00892 208963005666 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 208963005667 dimer interface [polypeptide binding]; other site 208963005668 putative tRNA-binding site [nucleotide binding]; other site 208963005669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963005670 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963005671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963005672 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 208963005673 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 208963005674 putative active site [active] 208963005675 putative metal binding site [ion binding]; other site 208963005676 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963005677 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 208963005678 MASE2 domain; Region: MASE2; pfam05230 208963005679 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 208963005680 cyclase homology domain; Region: CHD; cd07302 208963005681 nucleotidyl binding site; other site 208963005682 metal binding site [ion binding]; metal-binding site 208963005683 dimer interface [polypeptide binding]; other site 208963005684 Predicted membrane protein [Function unknown]; Region: COG4323 208963005685 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963005686 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963005687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963005688 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 208963005689 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 208963005690 mce related protein; Region: MCE; pfam02470 208963005691 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 208963005692 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 208963005693 Walker A/P-loop; other site 208963005694 ATP binding site [chemical binding]; other site 208963005695 Q-loop/lid; other site 208963005696 ABC transporter signature motif; other site 208963005697 Walker B; other site 208963005698 D-loop; other site 208963005699 H-loop/switch region; other site 208963005700 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 208963005701 Permease; Region: Permease; pfam02405 208963005702 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 208963005703 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 208963005704 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 208963005705 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 208963005706 putative FMN binding site [chemical binding]; other site 208963005707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963005708 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 208963005709 dimerization interface [polypeptide binding]; other site 208963005710 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963005711 ATP binding site [chemical binding]; other site 208963005712 Mg2+ binding site [ion binding]; other site 208963005713 G-X-G motif; other site 208963005714 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 208963005715 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963005716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963005717 active site 208963005718 phosphorylation site [posttranslational modification] 208963005719 intermolecular recognition site; other site 208963005720 dimerization interface [polypeptide binding]; other site 208963005721 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 208963005722 DNA binding site [nucleotide binding] 208963005723 YciI-like protein; Reviewed; Region: PRK11370 208963005724 intracellular septation protein A; Reviewed; Region: PRK00259 208963005725 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 208963005726 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 208963005727 active site 208963005728 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 208963005729 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 208963005730 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 208963005731 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 208963005732 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 208963005733 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 208963005734 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 208963005735 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 208963005736 phosphogluconate dehydratase; Validated; Region: PRK09054 208963005737 6-phosphogluconate dehydratase; Region: edd; TIGR01196 208963005738 glucokinase, proteobacterial type; Region: glk; TIGR00749 208963005739 glucokinase; Provisional; Region: glk; PRK00292 208963005740 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963005741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963005742 active site 208963005743 phosphorylation site [posttranslational modification] 208963005744 intermolecular recognition site; other site 208963005745 dimerization interface [polypeptide binding]; other site 208963005746 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 208963005747 DNA binding site [nucleotide binding] 208963005748 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 208963005749 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963005750 ATP binding site [chemical binding]; other site 208963005751 Mg2+ binding site [ion binding]; other site 208963005752 G-X-G motif; other site 208963005753 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 208963005754 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 208963005755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963005756 dimer interface [polypeptide binding]; other site 208963005757 conserved gate region; other site 208963005758 putative PBP binding loops; other site 208963005759 ABC-ATPase subunit interface; other site 208963005760 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 208963005761 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963005762 dimer interface [polypeptide binding]; other site 208963005763 conserved gate region; other site 208963005764 putative PBP binding loops; other site 208963005765 ABC-ATPase subunit interface; other site 208963005766 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 208963005767 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 208963005768 Walker A/P-loop; other site 208963005769 ATP binding site [chemical binding]; other site 208963005770 Q-loop/lid; other site 208963005771 ABC transporter signature motif; other site 208963005772 Walker B; other site 208963005773 D-loop; other site 208963005774 H-loop/switch region; other site 208963005775 TOBE domain; Region: TOBE; pfam03459 208963005776 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 208963005777 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 208963005778 active site 208963005779 phosphate binding residues; other site 208963005780 catalytic residues [active] 208963005781 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 208963005782 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 208963005783 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 208963005784 putative active site [active] 208963005785 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 208963005786 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 208963005787 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 208963005788 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 208963005789 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 208963005790 putative active site [active] 208963005791 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 208963005792 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 208963005793 active site 208963005794 intersubunit interface [polypeptide binding]; other site 208963005795 catalytic residue [active] 208963005796 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 208963005797 nudix motif; other site 208963005798 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 208963005799 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 208963005800 RNA binding surface [nucleotide binding]; other site 208963005801 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 208963005802 probable active site [active] 208963005803 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963005804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963005805 metal binding site [ion binding]; metal-binding site 208963005806 active site 208963005807 I-site; other site 208963005808 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 208963005809 agmatinase; Region: agmatinase; TIGR01230 208963005810 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 208963005811 putative active site [active] 208963005812 putative metal binding site [ion binding]; other site 208963005813 Transcriptional regulator [Transcription]; Region: IclR; COG1414 208963005814 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 208963005815 Bacterial transcriptional regulator; Region: IclR; pfam01614 208963005816 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 208963005817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963005818 NAD(P) binding site [chemical binding]; other site 208963005819 active site 208963005820 phosphoglycolate phosphatase; Provisional; Region: PRK13222 208963005821 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 208963005822 motif II; other site 208963005823 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 208963005824 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 208963005825 S-adenosylmethionine binding site [chemical binding]; other site 208963005826 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 208963005827 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 208963005828 active site 208963005829 putative substrate binding pocket [chemical binding]; other site 208963005830 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 208963005831 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 208963005832 DNA gyrase subunit A; Validated; Region: PRK05560 208963005833 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 208963005834 CAP-like domain; other site 208963005835 active site 208963005836 primary dimer interface [polypeptide binding]; other site 208963005837 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 208963005838 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 208963005839 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 208963005840 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 208963005841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 208963005842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 208963005843 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 208963005844 homodimer interface [polypeptide binding]; other site 208963005845 substrate-cofactor binding pocket; other site 208963005846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963005847 catalytic residue [active] 208963005848 Chorismate mutase type II; Region: CM_2; cl00693 208963005849 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 208963005850 Prephenate dehydratase; Region: PDT; pfam00800 208963005851 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 208963005852 putative L-Phe binding site [chemical binding]; other site 208963005853 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 208963005854 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 208963005855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963005856 homodimer interface [polypeptide binding]; other site 208963005857 catalytic residue [active] 208963005858 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 208963005859 prephenate dehydrogenase; Validated; Region: PRK08507 208963005860 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 208963005861 hinge; other site 208963005862 active site 208963005863 cytidylate kinase; Provisional; Region: cmk; PRK00023 208963005864 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 208963005865 CMP-binding site; other site 208963005866 The sites determining sugar specificity; other site 208963005867 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 208963005868 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 208963005869 RNA binding site [nucleotide binding]; other site 208963005870 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 208963005871 RNA binding site [nucleotide binding]; other site 208963005872 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 208963005873 RNA binding site [nucleotide binding]; other site 208963005874 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 208963005875 RNA binding site [nucleotide binding]; other site 208963005876 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 208963005877 RNA binding site [nucleotide binding]; other site 208963005878 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 208963005879 RNA binding site [nucleotide binding]; other site 208963005880 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 208963005881 IHF dimer interface [polypeptide binding]; other site 208963005882 IHF - DNA interface [nucleotide binding]; other site 208963005883 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 208963005884 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 208963005885 Chain length determinant protein; Region: Wzz; pfam02706 208963005886 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 208963005887 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 208963005888 active site 208963005889 homodimer interface [polypeptide binding]; other site 208963005890 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 208963005891 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 208963005892 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 208963005893 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 208963005894 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 208963005895 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 208963005896 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 208963005897 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 208963005898 putative NAD(P) binding site [chemical binding]; other site 208963005899 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 208963005900 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 208963005901 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 208963005902 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 208963005903 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 208963005904 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963005905 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 208963005906 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 208963005907 putative NAD(P) binding site [chemical binding]; other site 208963005908 active site 208963005909 putative substrate binding site [chemical binding]; other site 208963005910 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 208963005911 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 208963005912 Mg++ binding site [ion binding]; other site 208963005913 putative catalytic motif [active] 208963005914 putative substrate binding site [chemical binding]; other site 208963005915 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 208963005916 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 208963005917 NAD(P) binding site [chemical binding]; other site 208963005918 homodimer interface [polypeptide binding]; other site 208963005919 substrate binding site [chemical binding]; other site 208963005920 active site 208963005921 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 208963005922 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 208963005923 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 208963005924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963005925 homodimer interface [polypeptide binding]; other site 208963005926 catalytic residue [active] 208963005927 excinuclease ABC subunit B; Provisional; Region: PRK05298 208963005928 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 208963005929 ATP binding site [chemical binding]; other site 208963005930 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 208963005931 nucleotide binding region [chemical binding]; other site 208963005932 ATP-binding site [chemical binding]; other site 208963005933 Ultra-violet resistance protein B; Region: UvrB; pfam12344 208963005934 UvrB/uvrC motif; Region: UVR; pfam02151 208963005935 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963005936 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 208963005937 putative substrate translocation pore; other site 208963005938 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 208963005939 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963005940 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963005941 LysR family transcriptional regulator; Provisional; Region: PRK14997 208963005942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963005943 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 208963005944 putative effector binding pocket; other site 208963005945 dimerization interface [polypeptide binding]; other site 208963005946 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 208963005947 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 208963005948 HIGH motif; other site 208963005949 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 208963005950 active site 208963005951 KMSKS motif; other site 208963005952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963005953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963005954 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 208963005955 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963005956 Entner-Doudoroff aldolase; Region: eda; TIGR01182 208963005957 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 208963005958 active site 208963005959 intersubunit interface [polypeptide binding]; other site 208963005960 catalytic residue [active] 208963005961 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 208963005962 active site 208963005963 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 208963005964 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 208963005965 FMN binding site [chemical binding]; other site 208963005966 active site 208963005967 catalytic residues [active] 208963005968 substrate binding site [chemical binding]; other site 208963005969 short chain dehydrogenase; Provisional; Region: PRK06123 208963005970 classical (c) SDRs; Region: SDR_c; cd05233 208963005971 NAD(P) binding site [chemical binding]; other site 208963005972 active site 208963005973 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 208963005974 dimer interface [polypeptide binding]; other site 208963005975 ligand binding site [chemical binding]; other site 208963005976 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963005977 Coenzyme A binding pocket [chemical binding]; other site 208963005978 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 208963005979 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 208963005980 putative dimer interface [polypeptide binding]; other site 208963005981 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 208963005982 active site 208963005983 catalytic triad [active] 208963005984 oxyanion hole [active] 208963005985 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963005986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963005987 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 208963005988 putative effector binding pocket; other site 208963005989 putative dimerization interface [polypeptide binding]; other site 208963005990 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 208963005991 homotrimer interaction site [polypeptide binding]; other site 208963005992 putative active site [active] 208963005993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963005994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963005995 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 208963005996 dimerization interface [polypeptide binding]; other site 208963005997 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 208963005998 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 208963005999 substrate binding site [chemical binding]; other site 208963006000 ligand binding site [chemical binding]; other site 208963006001 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 208963006002 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 208963006003 substrate binding site [chemical binding]; other site 208963006004 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 208963006005 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 208963006006 tartrate dehydrogenase; Region: TTC; TIGR02089 208963006007 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 208963006008 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 208963006009 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 208963006010 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 208963006011 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 208963006012 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963006013 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 208963006014 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 208963006015 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 208963006016 dimerization interface 3.5A [polypeptide binding]; other site 208963006017 active site 208963006018 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 208963006019 active site 208963006020 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 208963006021 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 208963006022 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 208963006023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 208963006024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 208963006025 Sporulation related domain; Region: SPOR; pfam05036 208963006026 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 208963006027 Colicin V production protein; Region: Colicin_V; cl00567 208963006028 amidophosphoribosyltransferase; Provisional; Region: PRK09246 208963006029 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 208963006030 active site 208963006031 tetramer interface [polypeptide binding]; other site 208963006032 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963006033 active site 208963006034 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 208963006035 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 208963006036 homodimer interface [polypeptide binding]; other site 208963006037 substrate-cofactor binding pocket; other site 208963006038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963006039 catalytic residue [active] 208963006040 oxidoreductase; Validated; Region: PRK05717 208963006041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963006042 NAD(P) binding site [chemical binding]; other site 208963006043 active site 208963006044 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 208963006045 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963006046 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963006047 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963006048 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963006049 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 208963006050 type II secretion system protein E; Region: type_II_gspE; TIGR02533 208963006051 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 208963006052 Walker A motif; other site 208963006053 ATP binding site [chemical binding]; other site 208963006054 Walker B motif; other site 208963006055 type II secretion system protein F; Region: GspF; TIGR02120 208963006056 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963006057 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963006058 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 208963006059 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 208963006060 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 208963006061 type II secretion system protein I; Region: gspI; TIGR01707 208963006062 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 208963006063 type II secretion system protein J; Region: gspJ; TIGR01711 208963006064 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 208963006065 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 208963006066 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 208963006067 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 208963006068 GspL periplasmic domain; Region: GspL_C; pfam12693 208963006069 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 208963006070 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963006071 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963006072 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963006073 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 208963006074 Predicted amidohydrolase [General function prediction only]; Region: COG0388 208963006075 active site 208963006076 catalytic triad [active] 208963006077 dimer interface [polypeptide binding]; other site 208963006078 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963006079 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 208963006080 active site 208963006081 FMN binding site [chemical binding]; other site 208963006082 2,4-decadienoyl-CoA binding site; other site 208963006083 catalytic residue [active] 208963006084 4Fe-4S cluster binding site [ion binding]; other site 208963006085 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 208963006086 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 208963006087 catalytic residue [active] 208963006088 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 208963006089 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 208963006090 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 208963006091 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 208963006092 active site 208963006093 metal binding site [ion binding]; metal-binding site 208963006094 Rhomboid family; Region: Rhomboid; pfam01694 208963006095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 208963006096 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 208963006097 aminopeptidase N; Provisional; Region: pepN; PRK14015 208963006098 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 208963006099 active site 208963006100 Zn binding site [ion binding]; other site 208963006101 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 208963006102 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 208963006103 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 208963006104 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 208963006105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963006106 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 208963006107 dimer interface [polypeptide binding]; other site 208963006108 phosphorylation site [posttranslational modification] 208963006109 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963006110 ATP binding site [chemical binding]; other site 208963006111 Mg2+ binding site [ion binding]; other site 208963006112 G-X-G motif; other site 208963006113 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963006114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006115 active site 208963006116 phosphorylation site [posttranslational modification] 208963006117 intermolecular recognition site; other site 208963006118 dimerization interface [polypeptide binding]; other site 208963006119 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 208963006120 DNA binding site [nucleotide binding] 208963006121 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 208963006122 catalytic triad [active] 208963006123 putative active site [active] 208963006124 Autotransporter beta-domain; Region: Autotransporter; smart00869 208963006125 chlorophyllase; Region: PLN00021 208963006126 Oxygen tolerance; Region: BatD; pfam13584 208963006127 von Willebrand factor type A domain; Region: VWA_2; pfam13519 208963006128 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 208963006129 TPR repeat; Region: TPR_11; pfam13414 208963006130 binding surface 208963006131 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 208963006132 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 208963006133 metal ion-dependent adhesion site (MIDAS); other site 208963006134 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 208963006135 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 208963006136 Protein of unknown function DUF58; Region: DUF58; pfam01882 208963006137 MoxR-like ATPases [General function prediction only]; Region: COG0714 208963006138 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 208963006139 Walker A motif; other site 208963006140 ATP binding site [chemical binding]; other site 208963006141 Walker B motif; other site 208963006142 arginine finger; other site 208963006143 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 208963006144 Uncharacterized conserved protein [Function unknown]; Region: COG3868 208963006145 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 208963006146 putative active site [active] 208963006147 Tetratricopeptide repeat; Region: TPR_15; pfam13429 208963006148 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 208963006149 GAF domain; Region: GAF_2; pfam13185 208963006150 GAF domain; Region: GAF_3; pfam13492 208963006151 HEAT repeats; Region: HEAT_2; pfam13646 208963006152 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 208963006153 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963006154 Predicted membrane protein [Function unknown]; Region: COG4267 208963006155 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 208963006156 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 208963006157 non-specific DNA binding site [nucleotide binding]; other site 208963006158 salt bridge; other site 208963006159 sequence-specific DNA binding site [nucleotide binding]; other site 208963006160 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 208963006161 non-specific DNA binding site [nucleotide binding]; other site 208963006162 salt bridge; other site 208963006163 sequence-specific DNA binding site [nucleotide binding]; other site 208963006164 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 208963006165 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 208963006166 putative active site [active] 208963006167 Zn binding site [ion binding]; other site 208963006168 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963006169 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963006170 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 208963006171 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 208963006172 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 208963006173 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 208963006174 quinone interaction residues [chemical binding]; other site 208963006175 active site 208963006176 catalytic residues [active] 208963006177 FMN binding site [chemical binding]; other site 208963006178 substrate binding site [chemical binding]; other site 208963006179 Ribosome modulation factor [Translation, ribosomal structure and biogenesis]; Region: Rmf; COG3130 208963006180 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 208963006181 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 208963006182 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 208963006183 S-adenosylmethionine binding site [chemical binding]; other site 208963006184 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 208963006185 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 208963006186 hypothetical protein; Provisional; Region: PRK11702 208963006187 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963006188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006189 active site 208963006190 phosphorylation site [posttranslational modification] 208963006191 intermolecular recognition site; other site 208963006192 dimerization interface [polypeptide binding]; other site 208963006193 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 208963006194 DNA binding residues [nucleotide binding] 208963006195 dimerization interface [polypeptide binding]; other site 208963006196 PAS domain; Region: PAS_9; pfam13426 208963006197 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 208963006198 dimer interface [polypeptide binding]; other site 208963006199 phosphorylation site [posttranslational modification] 208963006200 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963006201 ATP binding site [chemical binding]; other site 208963006202 Mg2+ binding site [ion binding]; other site 208963006203 G-X-G motif; other site 208963006204 Response regulator receiver domain; Region: Response_reg; pfam00072 208963006205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006206 active site 208963006207 phosphorylation site [posttranslational modification] 208963006208 intermolecular recognition site; other site 208963006209 dimerization interface [polypeptide binding]; other site 208963006210 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 208963006211 putative binding surface; other site 208963006212 active site 208963006213 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 208963006214 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963006215 Zn2+ binding site [ion binding]; other site 208963006216 Mg2+ binding site [ion binding]; other site 208963006217 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 208963006218 Predicted membrane protein [Function unknown]; Region: COG5393 208963006219 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 208963006220 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 208963006221 outer membrane porin, OprD family; Region: OprD; pfam03573 208963006222 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 208963006223 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 208963006224 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963006225 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 208963006226 putative C-terminal domain interface [polypeptide binding]; other site 208963006227 putative GSH binding site (G-site) [chemical binding]; other site 208963006228 putative dimer interface [polypeptide binding]; other site 208963006229 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 208963006230 putative N-terminal domain interface [polypeptide binding]; other site 208963006231 putative dimer interface [polypeptide binding]; other site 208963006232 putative substrate binding pocket (H-site) [chemical binding]; other site 208963006233 putative transcriptional regulator; Provisional; Region: PRK11640 208963006234 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963006235 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 208963006236 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 208963006237 Cytochrome c; Region: Cytochrom_C; pfam00034 208963006238 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 208963006239 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 208963006240 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 208963006241 GTP binding site; other site 208963006242 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 208963006243 MPT binding site; other site 208963006244 trimer interface [polypeptide binding]; other site 208963006245 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 208963006246 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 208963006247 dimer interface [polypeptide binding]; other site 208963006248 putative functional site; other site 208963006249 putative MPT binding site; other site 208963006250 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963006251 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963006252 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963006253 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 208963006254 FAD binding domain; Region: FAD_binding_4; pfam01565 208963006255 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 208963006256 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 208963006257 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 208963006258 putative N- and C-terminal domain interface [polypeptide binding]; other site 208963006259 putative active site [active] 208963006260 MgATP binding site [chemical binding]; other site 208963006261 catalytic site [active] 208963006262 metal binding site [ion binding]; metal-binding site 208963006263 putative carbohydrate binding site [chemical binding]; other site 208963006264 lipid kinase; Reviewed; Region: PRK13054 208963006265 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 208963006266 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 208963006267 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 208963006268 MOSC domain; Region: MOSC; pfam03473 208963006269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 208963006270 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 208963006271 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 208963006272 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963006273 catalytic residue [active] 208963006274 ABC transporter ATPase component; Reviewed; Region: PRK11147 208963006275 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963006276 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963006277 ABC transporter; Region: ABC_tran_2; pfam12848 208963006278 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963006279 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 208963006280 Ligand Binding Site [chemical binding]; other site 208963006281 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 208963006282 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 208963006283 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 208963006284 substrate binding site [chemical binding]; other site 208963006285 oxyanion hole (OAH) forming residues; other site 208963006286 trimer interface [polypeptide binding]; other site 208963006287 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 208963006288 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963006289 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 208963006290 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 208963006291 dimer interface [polypeptide binding]; other site 208963006292 active site 208963006293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4728 208963006294 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 208963006295 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 208963006296 active site 208963006297 interdomain interaction site; other site 208963006298 putative metal-binding site [ion binding]; other site 208963006299 nucleotide binding site [chemical binding]; other site 208963006300 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 208963006301 domain I; other site 208963006302 DNA binding groove [nucleotide binding] 208963006303 phosphate binding site [ion binding]; other site 208963006304 domain II; other site 208963006305 domain III; other site 208963006306 nucleotide binding site [chemical binding]; other site 208963006307 catalytic site [active] 208963006308 domain IV; other site 208963006309 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 208963006310 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 208963006311 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 208963006312 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 208963006313 SOS-response cell division inhibitor, blocks FtsZ ring formation [Cell division and chromosome partitioning]; Region: SulA; COG5404 208963006314 LexA repressor; Validated; Region: PRK00215 208963006315 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 208963006316 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 208963006317 Catalytic site [active] 208963006318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963006319 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963006320 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 208963006321 beta-hexosaminidase; Provisional; Region: PRK05337 208963006322 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 208963006323 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 208963006324 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 208963006325 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 208963006326 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 208963006327 ATP binding site [chemical binding]; other site 208963006328 putative Mg++ binding site [ion binding]; other site 208963006329 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 208963006330 nucleotide binding region [chemical binding]; other site 208963006331 ATP-binding site [chemical binding]; other site 208963006332 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 208963006333 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 208963006334 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 208963006335 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 208963006336 aromatic amino acid transporter; Provisional; Region: PRK10238 208963006337 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 208963006338 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 208963006339 E3 interaction surface; other site 208963006340 lipoyl attachment site [posttranslational modification]; other site 208963006341 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 208963006342 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 208963006343 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 208963006344 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 208963006345 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 208963006346 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 208963006347 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 208963006348 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 208963006349 catalytic loop [active] 208963006350 iron binding site [ion binding]; other site 208963006351 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 208963006352 FAD binding pocket [chemical binding]; other site 208963006353 FAD binding motif [chemical binding]; other site 208963006354 phosphate binding motif [ion binding]; other site 208963006355 beta-alpha-beta structure motif; other site 208963006356 NAD binding pocket [chemical binding]; other site 208963006357 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 208963006358 ApbE family; Region: ApbE; pfam02424 208963006359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 208963006360 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 208963006361 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963006362 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963006363 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 208963006364 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 208963006365 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 208963006366 active site 208963006367 catalytic site [active] 208963006368 metal binding site [ion binding]; metal-binding site 208963006369 PilZ domain; Region: PilZ; pfam07238 208963006370 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 208963006371 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 208963006372 FtsX-like permease family; Region: FtsX; pfam02687 208963006373 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 208963006374 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 208963006375 Walker A/P-loop; other site 208963006376 ATP binding site [chemical binding]; other site 208963006377 Q-loop/lid; other site 208963006378 ABC transporter signature motif; other site 208963006379 Walker B; other site 208963006380 D-loop; other site 208963006381 H-loop/switch region; other site 208963006382 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 208963006383 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 208963006384 FtsX-like permease family; Region: FtsX; pfam02687 208963006385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 208963006386 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 208963006387 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 208963006388 Competence protein; Region: Competence; pfam03772 208963006389 Competence protein; Region: Competence; cl00471 208963006390 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 208963006391 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 208963006392 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 208963006393 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 208963006394 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 208963006395 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 208963006396 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 208963006397 Uncharacterized conserved protein [Function unknown]; Region: COG2835 208963006398 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 208963006399 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 208963006400 Ligand binding site; other site 208963006401 oligomer interface; other site 208963006402 Low molecular weight phosphatase family; Region: LMWPc; cd00115 208963006403 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 208963006404 active site 208963006405 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 208963006406 FAD binding domain; Region: FAD_binding_4; pfam01565 208963006407 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 208963006408 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 208963006409 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 208963006410 homodimer interface [polypeptide binding]; other site 208963006411 oligonucleotide binding site [chemical binding]; other site 208963006412 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 208963006413 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 208963006414 RNA binding surface [nucleotide binding]; other site 208963006415 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 208963006416 active site 208963006417 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 208963006418 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 208963006419 motif II; other site 208963006420 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 208963006421 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 208963006422 tandem repeat interface [polypeptide binding]; other site 208963006423 oligomer interface [polypeptide binding]; other site 208963006424 active site residues [active] 208963006425 Maf-like protein; Region: Maf; pfam02545 208963006426 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 208963006427 active site 208963006428 dimer interface [polypeptide binding]; other site 208963006429 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 208963006430 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 208963006431 putative phosphate acyltransferase; Provisional; Region: PRK05331 208963006432 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 208963006433 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 208963006434 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 208963006435 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 208963006436 NAD(P) binding site [chemical binding]; other site 208963006437 homotetramer interface [polypeptide binding]; other site 208963006438 homodimer interface [polypeptide binding]; other site 208963006439 active site 208963006440 acyl carrier protein; Provisional; Region: acpP; PRK00982 208963006441 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 208963006442 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 208963006443 dimer interface [polypeptide binding]; other site 208963006444 active site 208963006445 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 208963006446 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 208963006447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963006448 catalytic residue [active] 208963006449 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 208963006450 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 208963006451 dimerization interface [polypeptide binding]; other site 208963006452 thymidylate kinase; Validated; Region: tmk; PRK00698 208963006453 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 208963006454 TMP-binding site; other site 208963006455 ATP-binding site [chemical binding]; other site 208963006456 DNA polymerase III subunit delta'; Validated; Region: PRK05707 208963006457 DNA polymerase III subunit delta'; Validated; Region: PRK08485 208963006458 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 208963006459 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 208963006460 active site 208963006461 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 208963006462 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 208963006463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963006464 catalytic residue [active] 208963006465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963006466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963006467 WHG domain; Region: WHG; pfam13305 208963006468 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 208963006469 Radical SAM superfamily; Region: Radical_SAM; pfam04055 208963006470 FeS/SAM binding site; other site 208963006471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 208963006472 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 208963006473 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 208963006474 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963006475 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 208963006476 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 208963006477 Ligand binding site [chemical binding]; other site 208963006478 Electron transfer flavoprotein domain; Region: ETF; pfam01012 208963006479 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 208963006480 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 208963006481 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 208963006482 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 208963006483 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 208963006484 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 208963006485 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 208963006486 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963006487 nucleophilic elbow; other site 208963006488 catalytic triad; other site 208963006489 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 208963006490 active site 208963006491 SAM binding site [chemical binding]; other site 208963006492 homodimer interface [polypeptide binding]; other site 208963006493 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 208963006494 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 208963006495 Predicted integral membrane protein [Function unknown]; Region: COG5446 208963006496 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 208963006497 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 208963006498 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 208963006499 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 208963006500 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 208963006501 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 208963006502 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 208963006503 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 208963006504 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 208963006505 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 208963006506 Walker A motif; other site 208963006507 ATP binding site [chemical binding]; other site 208963006508 Walker B motif; other site 208963006509 arginine finger; other site 208963006510 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 208963006511 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 208963006512 metal ion-dependent adhesion site (MIDAS); other site 208963006513 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 208963006514 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 208963006515 dimer interface [polypeptide binding]; other site 208963006516 active site 208963006517 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 208963006518 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 208963006519 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 208963006520 PA/protease or protease-like domain interface [polypeptide binding]; other site 208963006521 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 208963006522 active site 208963006523 metal binding site [ion binding]; metal-binding site 208963006524 xanthine permease; Region: pbuX; TIGR03173 208963006525 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 208963006526 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963006527 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 208963006528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963006529 putative substrate translocation pore; other site 208963006530 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963006531 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 208963006532 FMN binding site [chemical binding]; other site 208963006533 active site 208963006534 substrate binding site [chemical binding]; other site 208963006535 catalytic residue [active] 208963006536 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963006537 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963006538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963006539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006540 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 208963006541 dimerization interface [polypeptide binding]; other site 208963006542 LysE type translocator; Region: LysE; cl00565 208963006543 Serine hydrolase; Region: Ser_hydrolase; cl17834 208963006544 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963006545 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 208963006546 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 208963006547 Walker A/P-loop; other site 208963006548 ATP binding site [chemical binding]; other site 208963006549 Q-loop/lid; other site 208963006550 ABC transporter signature motif; other site 208963006551 Walker B; other site 208963006552 D-loop; other site 208963006553 H-loop/switch region; other site 208963006554 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963006555 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963006556 dimer interface [polypeptide binding]; other site 208963006557 conserved gate region; other site 208963006558 putative PBP binding loops; other site 208963006559 ABC-ATPase subunit interface; other site 208963006560 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963006561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963006562 dimer interface [polypeptide binding]; other site 208963006563 conserved gate region; other site 208963006564 putative PBP binding loops; other site 208963006565 ABC-ATPase subunit interface; other site 208963006566 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 208963006567 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 208963006568 substrate binding pocket [chemical binding]; other site 208963006569 membrane-bound complex binding site; other site 208963006570 hinge residues; other site 208963006571 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 208963006572 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 208963006573 metal binding site [ion binding]; metal-binding site 208963006574 putative dimer interface [polypeptide binding]; other site 208963006575 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 208963006576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006577 LysR substrate binding domain; Region: LysR_substrate; pfam03466 208963006578 dimerization interface [polypeptide binding]; other site 208963006579 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 208963006580 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 208963006581 dimerization interface [polypeptide binding]; other site 208963006582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963006583 dimer interface [polypeptide binding]; other site 208963006584 putative CheW interface [polypeptide binding]; other site 208963006585 short chain dehydrogenase; Provisional; Region: PRK12744 208963006586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963006587 NAD(P) binding site [chemical binding]; other site 208963006588 active site 208963006589 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963006590 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963006591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963006592 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963006593 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 208963006594 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 208963006595 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 208963006596 ABC-ATPase subunit interface; other site 208963006597 dimer interface [polypeptide binding]; other site 208963006598 putative PBP binding regions; other site 208963006599 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 208963006600 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 208963006601 putative ligand binding residues [chemical binding]; other site 208963006602 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 208963006603 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 208963006604 Walker A/P-loop; other site 208963006605 ATP binding site [chemical binding]; other site 208963006606 Q-loop/lid; other site 208963006607 ABC transporter signature motif; other site 208963006608 Walker B; other site 208963006609 D-loop; other site 208963006610 H-loop/switch region; other site 208963006611 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963006612 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 208963006613 N-terminal plug; other site 208963006614 ligand-binding site [chemical binding]; other site 208963006615 Predicted membrane protein [Function unknown]; Region: COG1971 208963006616 Domain of unknown function DUF; Region: DUF204; pfam02659 208963006617 Domain of unknown function DUF; Region: DUF204; pfam02659 208963006618 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 208963006619 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 208963006620 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 208963006621 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 208963006622 active site 208963006623 putative homodimer interface [polypeptide binding]; other site 208963006624 SAM binding site [chemical binding]; other site 208963006625 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 208963006626 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 208963006627 S-adenosylmethionine binding site [chemical binding]; other site 208963006628 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 208963006629 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 208963006630 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 208963006631 Precorrin-8X methylmutase; Region: CbiC; pfam02570 208963006632 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 208963006633 homodimer interface [polypeptide binding]; other site 208963006634 active site 208963006635 SAM binding site [chemical binding]; other site 208963006636 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 208963006637 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 208963006638 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 208963006639 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 208963006640 active site 208963006641 SAM binding site [chemical binding]; other site 208963006642 homodimer interface [polypeptide binding]; other site 208963006643 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 208963006644 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963006645 substrate binding pocket [chemical binding]; other site 208963006646 membrane-bound complex binding site; other site 208963006647 hinge residues; other site 208963006648 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 208963006649 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963006650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963006651 ligand binding site [chemical binding]; other site 208963006652 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963006653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006654 active site 208963006655 phosphorylation site [posttranslational modification] 208963006656 intermolecular recognition site; other site 208963006657 dimerization interface [polypeptide binding]; other site 208963006658 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 208963006659 DNA binding residues [nucleotide binding] 208963006660 dimerization interface [polypeptide binding]; other site 208963006661 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 208963006662 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963006663 DNA-binding site [nucleotide binding]; DNA binding site 208963006664 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 208963006665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963006666 homodimer interface [polypeptide binding]; other site 208963006667 catalytic residue [active] 208963006668 RNA polymerase sigma factor; Provisional; Region: PRK12513 208963006669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963006670 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 208963006671 DNA binding residues [nucleotide binding] 208963006672 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 208963006673 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963006674 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963006675 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 208963006676 acyl-activating enzyme (AAE) consensus motif; other site 208963006677 acyl-activating enzyme (AAE) consensus motif; other site 208963006678 putative AMP binding site [chemical binding]; other site 208963006679 putative active site [active] 208963006680 putative CoA binding site [chemical binding]; other site 208963006681 short chain dehydrogenase; Provisional; Region: PRK08278 208963006682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963006683 NAD(P) binding site [chemical binding]; other site 208963006684 active site 208963006685 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 208963006686 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963006687 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 208963006688 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 208963006689 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 208963006690 carboxyltransferase (CT) interaction site; other site 208963006691 biotinylation site [posttranslational modification]; other site 208963006692 enoyl-CoA hydratase; Provisional; Region: PRK05995 208963006693 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 208963006694 substrate binding site [chemical binding]; other site 208963006695 oxyanion hole (OAH) forming residues; other site 208963006696 trimer interface [polypeptide binding]; other site 208963006697 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963006698 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963006699 active site 208963006700 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 208963006701 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 208963006702 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 208963006703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963006704 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963006705 NAD(P) binding site [chemical binding]; other site 208963006706 active site 208963006707 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 208963006708 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963006709 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963006710 CAAX protease self-immunity; Region: Abi; pfam02517 208963006711 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 208963006712 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 208963006713 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 208963006714 phosphorylation site [posttranslational modification] 208963006715 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963006716 ATP binding site [chemical binding]; other site 208963006717 Mg2+ binding site [ion binding]; other site 208963006718 G-X-G motif; other site 208963006719 Response regulator receiver domain; Region: Response_reg; pfam00072 208963006720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006721 active site 208963006722 phosphorylation site [posttranslational modification] 208963006723 intermolecular recognition site; other site 208963006724 dimerization interface [polypeptide binding]; other site 208963006725 Predicted membrane protein [Function unknown]; Region: COG4125 208963006726 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 208963006727 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 208963006728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963006729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006730 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 208963006731 dimerization interface [polypeptide binding]; other site 208963006732 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 208963006733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963006734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006735 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 208963006736 putative effector binding pocket; other site 208963006737 putative dimerization interface [polypeptide binding]; other site 208963006738 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 208963006739 active site 208963006740 dimer interface [polypeptide binding]; other site 208963006741 MoxR-like ATPases [General function prediction only]; Region: COG0714 208963006742 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 208963006743 Walker A motif; other site 208963006744 ATP binding site [chemical binding]; other site 208963006745 Walker B motif; other site 208963006746 arginine finger; other site 208963006747 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 208963006748 Protein of unknown function DUF58; Region: DUF58; pfam01882 208963006749 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 208963006750 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 208963006751 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 208963006752 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 208963006753 Uncharacterized conserved protein [Function unknown]; Region: COG5607 208963006754 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 208963006755 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 208963006756 active site 208963006757 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 208963006758 active site 2 [active] 208963006759 active site 1 [active] 208963006760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963006761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963006762 metal binding site [ion binding]; metal-binding site 208963006763 active site 208963006764 I-site; other site 208963006765 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 208963006766 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 208963006767 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 208963006768 dimerization interface [polypeptide binding]; other site 208963006769 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963006770 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963006771 dimer interface [polypeptide binding]; other site 208963006772 putative CheW interface [polypeptide binding]; other site 208963006773 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 208963006774 active site 208963006775 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 208963006776 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 208963006777 substrate binding pocket [chemical binding]; other site 208963006778 membrane-bound complex binding site; other site 208963006779 hinge residues; other site 208963006780 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 208963006781 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963006782 catalytic residue [active] 208963006783 Predicted membrane protein [Function unknown]; Region: COG2259 208963006784 lipase chaperone; Provisional; Region: PRK01294 208963006785 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 208963006786 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 208963006787 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 208963006788 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 208963006789 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 208963006790 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 208963006791 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 208963006792 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 208963006793 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 208963006794 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 208963006795 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 208963006796 Walker A/P-loop; other site 208963006797 ATP binding site [chemical binding]; other site 208963006798 Q-loop/lid; other site 208963006799 ABC transporter signature motif; other site 208963006800 Walker B; other site 208963006801 D-loop; other site 208963006802 H-loop/switch region; other site 208963006803 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 208963006804 active site 208963006805 catalytic triad [active] 208963006806 oxyanion hole [active] 208963006807 switch loop; other site 208963006808 L,D-transpeptidase; Provisional; Region: PRK10260 208963006809 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 208963006810 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 208963006811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 208963006812 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 208963006813 elongation factor P; Validated; Region: PRK00529 208963006814 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 208963006815 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 208963006816 RNA binding site [nucleotide binding]; other site 208963006817 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 208963006818 RNA binding site [nucleotide binding]; other site 208963006819 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 208963006820 Transcriptional regulators [Transcription]; Region: MarR; COG1846 208963006821 MarR family; Region: MarR; pfam01047 208963006822 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963006823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006824 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 208963006825 putative effector binding pocket; other site 208963006826 dimerization interface [polypeptide binding]; other site 208963006827 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 208963006828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963006829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006830 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 208963006831 dimerization interface [polypeptide binding]; other site 208963006832 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 208963006833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 208963006834 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 208963006835 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 208963006836 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 208963006837 enoyl-CoA hydratase; Provisional; Region: PRK06563 208963006838 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 208963006839 substrate binding site [chemical binding]; other site 208963006840 oxyanion hole (OAH) forming residues; other site 208963006841 trimer interface [polypeptide binding]; other site 208963006842 helicase 45; Provisional; Region: PTZ00424 208963006843 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 208963006844 ATP binding site [chemical binding]; other site 208963006845 Mg++ binding site [ion binding]; other site 208963006846 motif III; other site 208963006847 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 208963006848 nucleotide binding region [chemical binding]; other site 208963006849 ATP-binding site [chemical binding]; other site 208963006850 DbpA RNA binding domain; Region: DbpA; pfam03880 208963006851 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 208963006852 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 208963006853 putative active site [active] 208963006854 metal binding site [ion binding]; metal-binding site 208963006855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963006856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006857 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 208963006858 putative effector binding pocket; other site 208963006859 dimerization interface [polypeptide binding]; other site 208963006860 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 208963006861 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 208963006862 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963006863 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963006864 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 208963006865 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963006866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963006867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963006868 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 208963006869 putative substrate binding pocket [chemical binding]; other site 208963006870 putative dimerization interface [polypeptide binding]; other site 208963006871 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 208963006872 Ligand Binding Site [chemical binding]; other site 208963006873 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 208963006874 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 208963006875 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 208963006876 putative active site [active] 208963006877 Zn binding site [ion binding]; other site 208963006878 heat shock protein HtpX; Provisional; Region: PRK05457 208963006879 aminotransferase AlaT; Validated; Region: PRK09265 208963006880 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 208963006881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963006882 homodimer interface [polypeptide binding]; other site 208963006883 catalytic residue [active] 208963006884 methionine sulfoxide reductase B; Provisional; Region: PRK00222 208963006885 SelR domain; Region: SelR; pfam01641 208963006886 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 208963006887 catalytic residues [active] 208963006888 dimer interface [polypeptide binding]; other site 208963006889 MarR family; Region: MarR_2; cl17246 208963006890 Transcriptional regulators [Transcription]; Region: MarR; COG1846 208963006891 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 208963006892 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963006893 ATP binding site [chemical binding]; other site 208963006894 Mg2+ binding site [ion binding]; other site 208963006895 G-X-G motif; other site 208963006896 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963006897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006898 active site 208963006899 phosphorylation site [posttranslational modification] 208963006900 intermolecular recognition site; other site 208963006901 dimerization interface [polypeptide binding]; other site 208963006902 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 208963006903 Protein of unknown function (DUF815); Region: DUF815; pfam05673 208963006904 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 208963006905 GAF domain; Region: GAF_2; pfam13185 208963006906 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963006907 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 208963006908 C-terminal domain interface [polypeptide binding]; other site 208963006909 GSH binding site (G-site) [chemical binding]; other site 208963006910 dimer interface [polypeptide binding]; other site 208963006911 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 208963006912 N-terminal domain interface [polypeptide binding]; other site 208963006913 dimer interface [polypeptide binding]; other site 208963006914 substrate binding pocket (H-site) [chemical binding]; other site 208963006915 Killing trait; Region: RebB; pfam11747 208963006916 Killing trait; Region: RebB; pfam11747 208963006917 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 208963006918 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 208963006919 DNA binding residues [nucleotide binding] 208963006920 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 208963006921 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 208963006922 ligand binding site [chemical binding]; other site 208963006923 flexible hinge region; other site 208963006924 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 208963006925 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 208963006926 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 208963006927 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 208963006928 active site 208963006929 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 208963006930 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 208963006931 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 208963006932 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963006933 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 208963006934 putative C-terminal domain interface [polypeptide binding]; other site 208963006935 putative GSH binding site (G-site) [chemical binding]; other site 208963006936 putative dimer interface [polypeptide binding]; other site 208963006937 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 208963006938 putative N-terminal domain interface [polypeptide binding]; other site 208963006939 putative dimer interface [polypeptide binding]; other site 208963006940 putative substrate binding pocket (H-site) [chemical binding]; other site 208963006941 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 208963006942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963006943 Walker A/P-loop; other site 208963006944 ATP binding site [chemical binding]; other site 208963006945 Q-loop/lid; other site 208963006946 ABC transporter signature motif; other site 208963006947 Walker B; other site 208963006948 D-loop; other site 208963006949 H-loop/switch region; other site 208963006950 inner membrane transport permease; Provisional; Region: PRK15066 208963006951 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 208963006952 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 208963006953 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 208963006954 dimerization interface [polypeptide binding]; other site 208963006955 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 208963006956 dimer interface [polypeptide binding]; other site 208963006957 phosphorylation site [posttranslational modification] 208963006958 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963006959 ATP binding site [chemical binding]; other site 208963006960 Mg2+ binding site [ion binding]; other site 208963006961 G-X-G motif; other site 208963006962 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 208963006963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006964 active site 208963006965 phosphorylation site [posttranslational modification] 208963006966 intermolecular recognition site; other site 208963006967 dimerization interface [polypeptide binding]; other site 208963006968 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 208963006969 DNA binding site [nucleotide binding] 208963006970 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 208963006971 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 208963006972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 208963006973 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 208963006974 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 208963006975 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 208963006976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963006977 Zn2+ binding site [ion binding]; other site 208963006978 Mg2+ binding site [ion binding]; other site 208963006979 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 208963006980 transcriptional regulator protein; Region: phnR; TIGR03337 208963006981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963006982 DNA-binding site [nucleotide binding]; DNA binding site 208963006983 UTRA domain; Region: UTRA; pfam07702 208963006984 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 208963006985 active site 208963006986 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 208963006987 PilZ domain; Region: PilZ; pfam07238 208963006988 Response regulator receiver domain; Region: Response_reg; pfam00072 208963006989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963006990 active site 208963006991 phosphorylation site [posttranslational modification] 208963006992 intermolecular recognition site; other site 208963006993 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 208963006994 dimerization interface [polypeptide binding]; other site 208963006995 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 208963006996 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 208963006997 anti sigma factor interaction site; other site 208963006998 regulatory phosphorylation site [posttranslational modification]; other site 208963006999 transaldolase-like protein; Provisional; Region: PTZ00411 208963007000 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 208963007001 active site 208963007002 dimer interface [polypeptide binding]; other site 208963007003 catalytic residue [active] 208963007004 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 208963007005 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 208963007006 FMN binding site [chemical binding]; other site 208963007007 active site 208963007008 catalytic residues [active] 208963007009 substrate binding site [chemical binding]; other site 208963007010 BNR repeat-like domain; Region: BNR_2; pfam13088 208963007011 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 208963007012 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963007013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963007014 dimer interface [polypeptide binding]; other site 208963007015 putative CheW interface [polypeptide binding]; other site 208963007016 glutamate carboxypeptidase; Reviewed; Region: PRK06133 208963007017 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 208963007018 metal binding site [ion binding]; metal-binding site 208963007019 dimer interface [polypeptide binding]; other site 208963007020 GAF domain; Region: GAF_2; pfam13185 208963007021 Predicted transcriptional regulator [Transcription]; Region: COG3655 208963007022 salt bridge; other site 208963007023 non-specific DNA binding site [nucleotide binding]; other site 208963007024 sequence-specific DNA binding site [nucleotide binding]; other site 208963007025 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 208963007026 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 208963007027 active site 208963007028 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 208963007029 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 208963007030 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 208963007031 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 208963007032 non-specific DNA binding site [nucleotide binding]; other site 208963007033 salt bridge; other site 208963007034 sequence-specific DNA binding site [nucleotide binding]; other site 208963007035 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 208963007036 putative active site [active] 208963007037 TPR repeat; Region: TPR_11; pfam13414 208963007038 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 208963007039 binding surface 208963007040 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 208963007041 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963007042 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963007043 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 208963007044 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 208963007045 active site 208963007046 motif I; other site 208963007047 motif II; other site 208963007048 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 208963007049 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 208963007050 nudix motif; other site 208963007051 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 208963007052 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 208963007053 substrate binding site [chemical binding]; other site 208963007054 oxyanion hole (OAH) forming residues; other site 208963007055 trimer interface [polypeptide binding]; other site 208963007056 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963007057 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963007058 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 208963007059 Serine hydrolase; Region: Ser_hydrolase; cl17834 208963007060 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963007061 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 208963007062 outer membrane porin, OprD family; Region: OprD; pfam03573 208963007063 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963007064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007065 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 208963007066 dimerization interface [polypeptide binding]; other site 208963007067 Predicted membrane protein [Function unknown]; Region: COG4125 208963007068 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 208963007069 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 208963007070 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 208963007071 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 208963007072 secondary substrate binding site; other site 208963007073 primary substrate binding site; other site 208963007074 inhibition loop; other site 208963007075 dimerization interface [polypeptide binding]; other site 208963007076 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 208963007077 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 208963007078 Predicted membrane protein [Function unknown]; Region: COG1238 208963007079 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 208963007080 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 208963007081 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 208963007082 DNA-specific endonuclease I; Provisional; Region: PRK15137 208963007083 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 208963007084 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 208963007085 active site 208963007086 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 208963007087 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963007088 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 208963007089 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 208963007090 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 208963007091 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 208963007092 active site 208963007093 dimer interface [polypeptide binding]; other site 208963007094 motif 1; other site 208963007095 motif 2; other site 208963007096 motif 3; other site 208963007097 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 208963007098 anticodon binding site; other site 208963007099 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 208963007100 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 208963007101 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 208963007102 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 208963007103 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 208963007104 23S rRNA binding site [nucleotide binding]; other site 208963007105 L21 binding site [polypeptide binding]; other site 208963007106 L13 binding site [polypeptide binding]; other site 208963007107 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 208963007108 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 208963007109 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 208963007110 dimer interface [polypeptide binding]; other site 208963007111 motif 1; other site 208963007112 active site 208963007113 motif 2; other site 208963007114 motif 3; other site 208963007115 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 208963007116 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 208963007117 putative tRNA-binding site [nucleotide binding]; other site 208963007118 B3/4 domain; Region: B3_4; pfam03483 208963007119 tRNA synthetase B5 domain; Region: B5; smart00874 208963007120 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 208963007121 dimer interface [polypeptide binding]; other site 208963007122 motif 1; other site 208963007123 motif 3; other site 208963007124 motif 2; other site 208963007125 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 208963007126 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 208963007127 IHF dimer interface [polypeptide binding]; other site 208963007128 IHF - DNA interface [nucleotide binding]; other site 208963007129 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 208963007130 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 208963007131 DNA binding residues [nucleotide binding] 208963007132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 208963007133 Integrase core domain; Region: rve_3; pfam13683 208963007134 Transposase; Region: HTH_Tnp_1; pfam01527 208963007135 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 208963007136 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 208963007137 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 208963007138 Fic family protein [Function unknown]; Region: COG3177 208963007139 Fic/DOC family; Region: Fic; pfam02661 208963007140 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 208963007141 active site 208963007142 substrate binding site [chemical binding]; other site 208963007143 catalytic site [active] 208963007144 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 208963007145 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 208963007146 ATP binding site [chemical binding]; other site 208963007147 putative Mg++ binding site [ion binding]; other site 208963007148 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 208963007149 nucleotide binding region [chemical binding]; other site 208963007150 ATP-binding site [chemical binding]; other site 208963007151 Part of AAA domain; Region: AAA_19; pfam13245 208963007152 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 208963007153 Family description; Region: UvrD_C_2; pfam13538 208963007154 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 208963007155 tellurite resistance protein terB; Region: terB; cd07176 208963007156 putative metal binding site [ion binding]; other site 208963007157 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 208963007158 DEAD-like helicases superfamily; Region: DEXDc; smart00487 208963007159 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 208963007160 ATP binding site [chemical binding]; other site 208963007161 putative Mg++ binding site [ion binding]; other site 208963007162 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 208963007163 nucleotide binding region [chemical binding]; other site 208963007164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 208963007165 HTH-like domain; Region: HTH_21; pfam13276 208963007166 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 208963007167 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 208963007168 active site 208963007169 ATP binding site [chemical binding]; other site 208963007170 substrate binding site [chemical binding]; other site 208963007171 activation loop (A-loop); other site 208963007172 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 208963007173 AAA domain; Region: AAA_11; pfam13086 208963007174 Part of AAA domain; Region: AAA_19; pfam13245 208963007175 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 208963007176 AAA domain; Region: AAA_12; pfam13087 208963007177 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 208963007178 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 208963007179 FeS/SAM binding site; other site 208963007180 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 208963007181 Zeta toxin; Region: Zeta_toxin; pfam06414 208963007182 Walker A motif; other site 208963007183 ATP binding site [chemical binding]; other site 208963007184 Walker B motif; other site 208963007185 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 208963007186 Uncharacterized conserved protein [Function unknown]; Region: COG3791 208963007187 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 208963007188 dimer interface [polypeptide binding]; other site 208963007189 RNA polymerase sigma factor; Provisional; Region: PRK12528 208963007190 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 208963007191 DNA binding residues [nucleotide binding] 208963007192 fec operon regulator FecR; Reviewed; Region: PRK09774 208963007193 FecR protein; Region: FecR; pfam04773 208963007194 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 208963007195 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 208963007196 potential catalytic triad [active] 208963007197 conserved cys residue [active] 208963007198 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 208963007199 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 208963007200 DNA binding residues [nucleotide binding] 208963007201 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963007202 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963007203 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963007204 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963007205 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 208963007206 putative active site [active] 208963007207 putative FMN binding site [chemical binding]; other site 208963007208 putative substrate binding site [chemical binding]; other site 208963007209 putative catalytic residue [active] 208963007210 Ferredoxin [Energy production and conversion]; Region: COG1146 208963007211 4Fe-4S binding domain; Region: Fer4; cl02805 208963007212 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 208963007213 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 208963007214 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 208963007215 putative [Fe4-S4] binding site [ion binding]; other site 208963007216 putative molybdopterin cofactor binding site [chemical binding]; other site 208963007217 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 208963007218 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 208963007219 putative molybdopterin cofactor binding site; other site 208963007220 Predicted transcriptional regulators [Transcription]; Region: COG1733 208963007221 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 208963007222 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 208963007223 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 208963007224 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963007225 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963007226 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 208963007227 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 208963007228 dimer interface [polypeptide binding]; other site 208963007229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963007230 catalytic residue [active] 208963007231 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 208963007232 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 208963007233 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 208963007234 Walker A motif; other site 208963007235 ATP binding site [chemical binding]; other site 208963007236 Walker B motif; other site 208963007237 arginine finger; other site 208963007238 Uncharacterized conserved protein [Function unknown]; Region: COG3791 208963007239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 208963007240 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963007241 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963007242 Tse2 immunity protein Tsi2 and similar proteins; Region: Tsi2_like; cd11690 208963007243 dimer interface [polypeptide binding]; other site 208963007244 Transmembrane secretion effector; Region: MFS_3; pfam05977 208963007245 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963007246 putative substrate translocation pore; other site 208963007247 outer membrane porin, OprD family; Region: OprD; pfam03573 208963007248 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 208963007249 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 208963007250 active site 208963007251 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 208963007252 Isochorismatase family; Region: Isochorismatase; pfam00857 208963007253 catalytic triad [active] 208963007254 dimer interface [polypeptide binding]; other site 208963007255 conserved cis-peptide bond; other site 208963007256 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 208963007257 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963007258 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963007259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963007260 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 208963007261 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 208963007262 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 208963007263 catalytic residues [active] 208963007264 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 208963007265 Predicted transcriptional regulator [Transcription]; Region: COG1959 208963007266 Transcriptional regulator; Region: Rrf2; pfam02082 208963007267 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 208963007268 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963007269 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 208963007270 outer membrane receptor FepA; Provisional; Region: PRK13524 208963007271 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 208963007272 N-terminal plug; other site 208963007273 ligand-binding site [chemical binding]; other site 208963007274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963007275 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 208963007276 phosphorylation site [posttranslational modification] 208963007277 dimer interface [polypeptide binding]; other site 208963007278 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963007279 ATP binding site [chemical binding]; other site 208963007280 Mg2+ binding site [ion binding]; other site 208963007281 G-X-G motif; other site 208963007282 protein fragment, probably inactive 208963007283 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963007284 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963007285 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963007286 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 208963007287 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 208963007288 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963007289 RHS Repeat; Region: RHS_repeat; pfam05593 208963007290 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963007291 RHS Repeat; Region: RHS_repeat; pfam05593 208963007292 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 208963007293 RHS Repeat; Region: RHS_repeat; pfam05593 208963007294 RHS Repeat; Region: RHS_repeat; cl11982 208963007295 RHS protein; Region: RHS; pfam03527 208963007296 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 208963007297 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 208963007298 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 208963007299 tetramer interface [polypeptide binding]; other site 208963007300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963007301 catalytic residue [active] 208963007302 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 208963007303 SnoaL-like domain; Region: SnoaL_2; pfam12680 208963007304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963007305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007306 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 208963007307 putative effector binding pocket; other site 208963007308 dimerization interface [polypeptide binding]; other site 208963007309 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 208963007310 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 208963007311 NADP binding site [chemical binding]; other site 208963007312 dimer interface [polypeptide binding]; other site 208963007313 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 208963007314 S-adenosylmethionine binding site [chemical binding]; other site 208963007315 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 208963007316 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 208963007317 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 208963007318 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 208963007319 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 208963007320 Walker A motif; other site 208963007321 ATP binding site [chemical binding]; other site 208963007322 Walker B motif; other site 208963007323 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 208963007324 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963007325 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963007326 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 208963007327 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 208963007328 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 208963007329 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 208963007330 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 208963007331 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 208963007332 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 208963007333 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 208963007334 active site 208963007335 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 208963007336 GAF domain; Region: GAF; pfam01590 208963007337 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 208963007338 Walker A motif; other site 208963007339 ATP binding site [chemical binding]; other site 208963007340 Walker B motif; other site 208963007341 arginine finger; other site 208963007342 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 208963007343 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 208963007344 heme-binding site [chemical binding]; other site 208963007345 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 208963007346 FAD binding pocket [chemical binding]; other site 208963007347 FAD binding motif [chemical binding]; other site 208963007348 phosphate binding motif [ion binding]; other site 208963007349 beta-alpha-beta structure motif; other site 208963007350 NAD binding pocket [chemical binding]; other site 208963007351 Heme binding pocket [chemical binding]; other site 208963007352 NnrS protein; Region: NnrS; cl01258 208963007353 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 208963007354 Predicted membrane protein [Function unknown]; Region: COG3212 208963007355 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 208963007356 Predicted membrane protein [Function unknown]; Region: COG3212 208963007357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963007358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963007359 active site 208963007360 phosphorylation site [posttranslational modification] 208963007361 intermolecular recognition site; other site 208963007362 dimerization interface [polypeptide binding]; other site 208963007363 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 208963007364 DNA binding site [nucleotide binding] 208963007365 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963007366 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963007367 ATP binding site [chemical binding]; other site 208963007368 Mg2+ binding site [ion binding]; other site 208963007369 G-X-G motif; other site 208963007370 Cache domain; Region: Cache_1; pfam02743 208963007371 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 208963007372 dimerization interface [polypeptide binding]; other site 208963007373 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963007374 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963007375 dimer interface [polypeptide binding]; other site 208963007376 putative CheW interface [polypeptide binding]; other site 208963007377 Predicted permease [General function prediction only]; Region: COG2056 208963007378 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 208963007379 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 208963007380 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 208963007381 dimerization interface [polypeptide binding]; other site 208963007382 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963007383 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963007384 dimer interface [polypeptide binding]; other site 208963007385 putative CheW interface [polypeptide binding]; other site 208963007386 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 208963007387 Domain of unknown function DUF20; Region: UPF0118; pfam01594 208963007388 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 208963007389 S-adenosylmethionine binding site [chemical binding]; other site 208963007390 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 208963007391 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 208963007392 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 208963007393 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 208963007394 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 208963007395 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 208963007396 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 208963007397 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 208963007398 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 208963007399 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 208963007400 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 208963007401 4Fe-4S binding domain; Region: Fer4; pfam00037 208963007402 4Fe-4S binding domain; Region: Fer4; pfam00037 208963007403 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 208963007404 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 208963007405 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 208963007406 catalytic loop [active] 208963007407 iron binding site [ion binding]; other site 208963007408 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 208963007409 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 208963007410 [4Fe-4S] binding site [ion binding]; other site 208963007411 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 208963007412 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 208963007413 SLBB domain; Region: SLBB; pfam10531 208963007414 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 208963007415 NADH dehydrogenase subunit E; Validated; Region: PRK07539 208963007416 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 208963007417 putative dimer interface [polypeptide binding]; other site 208963007418 [2Fe-2S] cluster binding site [ion binding]; other site 208963007419 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 208963007420 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 208963007421 NADH dehydrogenase subunit D; Validated; Region: PRK06075 208963007422 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 208963007423 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 208963007424 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 208963007425 CoenzymeA binding site [chemical binding]; other site 208963007426 subunit interaction site [polypeptide binding]; other site 208963007427 PHB binding site; other site 208963007428 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 208963007429 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 208963007430 tetramer interface [polypeptide binding]; other site 208963007431 active site 208963007432 Mg2+/Mn2+ binding site [ion binding]; other site 208963007433 isocitrate lyase; Region: PLN02892 208963007434 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963007435 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963007436 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963007437 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963007438 Coenzyme A binding pocket [chemical binding]; other site 208963007439 Uncharacterized conserved protein [Function unknown]; Region: COG2850 208963007440 Cupin domain; Region: Cupin_2; cl17218 208963007441 adenylosuccinate lyase; Provisional; Region: PRK09285 208963007442 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 208963007443 tetramer interface [polypeptide binding]; other site 208963007444 active site 208963007445 EamA-like transporter family; Region: EamA; pfam00892 208963007446 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 208963007447 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 208963007448 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 208963007449 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 208963007450 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 208963007451 nudix motif; other site 208963007452 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 208963007453 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 208963007454 isocitrate dehydrogenase; Validated; Region: PRK07362 208963007455 isocitrate dehydrogenase; Reviewed; Region: PRK07006 208963007456 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 208963007457 DNA-binding site [nucleotide binding]; DNA binding site 208963007458 RNA-binding motif; other site 208963007459 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 208963007460 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 208963007461 Clp amino terminal domain; Region: Clp_N; pfam02861 208963007462 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 208963007463 Walker A motif; other site 208963007464 ATP binding site [chemical binding]; other site 208963007465 Walker B motif; other site 208963007466 arginine finger; other site 208963007467 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 208963007468 Walker A motif; other site 208963007469 ATP binding site [chemical binding]; other site 208963007470 Walker B motif; other site 208963007471 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 208963007472 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 208963007473 rRNA binding site [nucleotide binding]; other site 208963007474 predicted 30S ribosome binding site; other site 208963007475 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 208963007476 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 208963007477 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 208963007478 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 208963007479 thioredoxin reductase; Provisional; Region: PRK10262 208963007480 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963007481 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963007482 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 208963007483 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 208963007484 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 208963007485 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 208963007486 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 208963007487 recombination factor protein RarA; Reviewed; Region: PRK13342 208963007488 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 208963007489 Walker A motif; other site 208963007490 ATP binding site [chemical binding]; other site 208963007491 Walker B motif; other site 208963007492 arginine finger; other site 208963007493 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 208963007494 seryl-tRNA synthetase; Provisional; Region: PRK05431 208963007495 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 208963007496 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 208963007497 dimer interface [polypeptide binding]; other site 208963007498 active site 208963007499 motif 1; other site 208963007500 motif 2; other site 208963007501 motif 3; other site 208963007502 siroheme synthase; Provisional; Region: cysG; PRK10637 208963007503 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 208963007504 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 208963007505 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 208963007506 active site 208963007507 SAM binding site [chemical binding]; other site 208963007508 homodimer interface [polypeptide binding]; other site 208963007509 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 208963007510 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 208963007511 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 208963007512 putative dimer interface [polypeptide binding]; other site 208963007513 N-terminal domain interface [polypeptide binding]; other site 208963007514 putative substrate binding pocket (H-site) [chemical binding]; other site 208963007515 hypothetical protein; Validated; Region: PRK09071 208963007516 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 208963007517 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 208963007518 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 208963007519 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 208963007520 sulfur relay protein TusC; Validated; Region: PRK00211 208963007521 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 208963007522 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 208963007523 YccA-like proteins; Region: YccA_like; cd10433 208963007524 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 208963007525 active site residue [active] 208963007526 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 208963007527 active site residue [active] 208963007528 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 208963007529 active site residue [active] 208963007530 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 208963007531 active site residue [active] 208963007532 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 208963007533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963007534 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007535 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 208963007536 dimerization interface [polypeptide binding]; other site 208963007537 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 208963007538 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 208963007539 dimer interface [polypeptide binding]; other site 208963007540 active site 208963007541 non-prolyl cis peptide bond; other site 208963007542 insertion regions; other site 208963007543 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 208963007544 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 208963007545 substrate binding pocket [chemical binding]; other site 208963007546 membrane-bound complex binding site; other site 208963007547 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 208963007548 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 208963007549 dimer interface [polypeptide binding]; other site 208963007550 active site 208963007551 non-prolyl cis peptide bond; other site 208963007552 insertion regions; other site 208963007553 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963007554 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 208963007555 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 208963007556 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 208963007557 substrate binding pocket [chemical binding]; other site 208963007558 membrane-bound complex binding site; other site 208963007559 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 208963007560 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 208963007561 membrane-bound complex binding site; other site 208963007562 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 208963007563 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 208963007564 substrate binding pocket [chemical binding]; other site 208963007565 membrane-bound complex binding site; other site 208963007566 hinge residues; other site 208963007567 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 208963007568 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963007569 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963007570 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 208963007571 DNA binding residues [nucleotide binding] 208963007572 dimerization interface [polypeptide binding]; other site 208963007573 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963007574 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 208963007575 N-terminal plug; other site 208963007576 ligand-binding site [chemical binding]; other site 208963007577 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 208963007578 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963007579 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963007580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963007581 hypothetical protein; Provisional; Region: PRK06753 208963007582 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 208963007583 response regulator; Provisional; Region: PRK09483 208963007584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963007585 active site 208963007586 phosphorylation site [posttranslational modification] 208963007587 intermolecular recognition site; other site 208963007588 dimerization interface [polypeptide binding]; other site 208963007589 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 208963007590 DNA binding residues [nucleotide binding] 208963007591 dimerization interface [polypeptide binding]; other site 208963007592 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 208963007593 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 208963007594 GIY-YIG motif/motif A; other site 208963007595 active site 208963007596 catalytic site [active] 208963007597 putative DNA binding site [nucleotide binding]; other site 208963007598 metal binding site [ion binding]; metal-binding site 208963007599 UvrB/uvrC motif; Region: UVR; pfam02151 208963007600 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 208963007601 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 208963007602 DNA binding site [nucleotide binding] 208963007603 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 208963007604 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 208963007605 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 208963007606 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 208963007607 substrate binding pocket [chemical binding]; other site 208963007608 membrane-bound complex binding site; other site 208963007609 hinge residues; other site 208963007610 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963007611 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 208963007612 substrate binding pocket [chemical binding]; other site 208963007613 membrane-bound complex binding site; other site 208963007614 hinge residues; other site 208963007615 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 208963007616 dimer interface [polypeptide binding]; other site 208963007617 phosphorylation site [posttranslational modification] 208963007618 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963007619 ATP binding site [chemical binding]; other site 208963007620 Mg2+ binding site [ion binding]; other site 208963007621 G-X-G motif; other site 208963007622 Response regulator receiver domain; Region: Response_reg; pfam00072 208963007623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963007624 active site 208963007625 phosphorylation site [posttranslational modification] 208963007626 intermolecular recognition site; other site 208963007627 dimerization interface [polypeptide binding]; other site 208963007628 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 208963007629 ProQ/FINO family; Region: ProQ; pfam04352 208963007630 putative RNA binding sites [nucleotide binding]; other site 208963007631 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 208963007632 Tryptophan 2,3-dioxygenase (vermilion) [Amino acid transport and metabolism]; Region: TDO2; COG3483 208963007633 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 208963007634 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963007635 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963007636 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 208963007637 putative DNA binding site [nucleotide binding]; other site 208963007638 putative Zn2+ binding site [ion binding]; other site 208963007639 AsnC family; Region: AsnC_trans_reg; pfam01037 208963007640 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 208963007641 EamA-like transporter family; Region: EamA; pfam00892 208963007642 EamA-like transporter family; Region: EamA; pfam00892 208963007643 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 208963007644 dimer interface [polypeptide binding]; other site 208963007645 FMN binding site [chemical binding]; other site 208963007646 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 208963007647 Fatty acid desaturase; Region: FA_desaturase; pfam00487 208963007648 Di-iron ligands [ion binding]; other site 208963007649 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 208963007650 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 208963007651 dimerization interface [polypeptide binding]; other site 208963007652 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963007653 dimer interface [polypeptide binding]; other site 208963007654 putative CheW interface [polypeptide binding]; other site 208963007655 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 208963007656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963007657 active site 208963007658 phosphorylation site [posttranslational modification] 208963007659 intermolecular recognition site; other site 208963007660 dimerization interface [polypeptide binding]; other site 208963007661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963007662 Zn2+ binding site [ion binding]; other site 208963007663 Mg2+ binding site [ion binding]; other site 208963007664 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963007665 ATP binding site [chemical binding]; other site 208963007666 Mg2+ binding site [ion binding]; other site 208963007667 G-X-G motif; other site 208963007668 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 208963007669 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 208963007670 VirB7 interaction site; other site 208963007671 conjugal transfer protein TrbF; Provisional; Region: PRK13872 208963007672 conjugal transfer protein TrbL; Provisional; Region: PRK13875 208963007673 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 208963007674 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 208963007675 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 208963007676 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 208963007677 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 208963007678 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 208963007679 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 208963007680 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 208963007681 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 208963007682 ATP binding site [chemical binding]; other site 208963007683 Walker A motif; other site 208963007684 hexamer interface [polypeptide binding]; other site 208963007685 Walker B motif; other site 208963007686 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 208963007687 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 208963007688 Walker A motif; other site 208963007689 ATP binding site [chemical binding]; other site 208963007690 Walker B motif; other site 208963007691 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 208963007692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007693 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 208963007694 dimerization interface [polypeptide binding]; other site 208963007695 substrate binding pocket [chemical binding]; other site 208963007696 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 208963007697 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 208963007698 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 208963007699 carboxyltransferase (CT) interaction site; other site 208963007700 biotinylation site [posttranslational modification]; other site 208963007701 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 208963007702 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 208963007703 Peptidase family M48; Region: Peptidase_M48; cl12018 208963007704 Penicillinase repressor; Region: Pencillinase_R; cl17580 208963007705 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 208963007706 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 208963007707 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 208963007708 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 208963007709 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 208963007710 ParA-like protein; Provisional; Region: PHA02518 208963007711 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 208963007712 P-loop; other site 208963007713 Magnesium ion binding site [ion binding]; other site 208963007714 Replication initiator protein A; Region: RPA; pfam10134 208963007715 Uncharacterized conserved protein [Function unknown]; Region: COG5419 208963007716 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 208963007717 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 208963007718 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 208963007719 non-specific DNA binding site [nucleotide binding]; other site 208963007720 salt bridge; other site 208963007721 sequence-specific DNA binding site [nucleotide binding]; other site 208963007722 Uncharacterized conserved protein [Function unknown]; Region: COG5489 208963007723 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 208963007724 ParB-like nuclease domain; Region: ParBc; pfam02195 208963007725 Domain of unknown function (DUF932); Region: DUF932; pfam06067 208963007726 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 208963007727 H+ Antiporter protein; Region: 2A0121; TIGR00900 208963007728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963007729 putative substrate translocation pore; other site 208963007730 hypothetical protein; Reviewed; Region: PRK00024 208963007731 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 208963007732 MPN+ (JAMM) motif; other site 208963007733 Zinc-binding site [ion binding]; other site 208963007734 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 208963007735 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 208963007736 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 208963007737 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 208963007738 active site 208963007739 Int/Topo IB signature motif; other site 208963007740 DNA binding site [nucleotide binding] 208963007741 PA-IL-like protein; Region: PA-IL; pfam07828 208963007742 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 208963007743 GAF domain; Region: GAF; pfam01590 208963007744 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963007745 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963007746 metal binding site [ion binding]; metal-binding site 208963007747 active site 208963007748 I-site; other site 208963007749 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 208963007750 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 208963007751 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 208963007752 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 208963007753 S-adenosylmethionine binding site [chemical binding]; other site 208963007754 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 208963007755 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 208963007756 Sulfate transporter family; Region: Sulfate_transp; pfam00916 208963007757 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 208963007758 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 208963007759 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 208963007760 dimerization interface [polypeptide binding]; other site 208963007761 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963007762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963007763 dimer interface [polypeptide binding]; other site 208963007764 putative CheW interface [polypeptide binding]; other site 208963007765 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 208963007766 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 208963007767 MgtC family; Region: MgtC; pfam02308 208963007768 AMP-binding domain protein; Validated; Region: PRK08315 208963007769 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963007770 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 208963007771 acyl-activating enzyme (AAE) consensus motif; other site 208963007772 putative AMP binding site [chemical binding]; other site 208963007773 putative active site [active] 208963007774 putative CoA binding site [chemical binding]; other site 208963007775 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963007776 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963007777 SurA N-terminal domain; Region: SurA_N; pfam09312 208963007778 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963007779 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 208963007780 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963007781 acyl-activating enzyme (AAE) consensus motif; other site 208963007782 AMP binding site [chemical binding]; other site 208963007783 active site 208963007784 CoA binding site [chemical binding]; other site 208963007785 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 208963007786 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 208963007787 NAD binding site [chemical binding]; other site 208963007788 homodimer interface [polypeptide binding]; other site 208963007789 homotetramer interface [polypeptide binding]; other site 208963007790 active site 208963007791 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 208963007792 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 208963007793 dimer interface [polypeptide binding]; other site 208963007794 active site 208963007795 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963007796 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963007797 active site 208963007798 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 208963007799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007800 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 208963007801 substrate binding pocket [chemical binding]; other site 208963007802 dimerization interface [polypeptide binding]; other site 208963007803 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963007804 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 208963007805 FAD binding site [chemical binding]; other site 208963007806 substrate binding site [chemical binding]; other site 208963007807 catalytic base [active] 208963007808 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 208963007809 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 208963007810 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 208963007811 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963007812 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963007813 ligand binding site [chemical binding]; other site 208963007814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007815 LysR family transcriptional regulator; Provisional; Region: PRK14997 208963007816 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 208963007817 putative effector binding pocket; other site 208963007818 dimerization interface [polypeptide binding]; other site 208963007819 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 208963007820 dimer interface [polypeptide binding]; other site 208963007821 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963007822 metal binding site [ion binding]; metal-binding site 208963007823 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 208963007824 putative catalytic site [active] 208963007825 putative phosphate binding site [ion binding]; other site 208963007826 active site 208963007827 metal binding site A [ion binding]; metal-binding site 208963007828 DNA binding site [nucleotide binding] 208963007829 putative AP binding site [nucleotide binding]; other site 208963007830 putative metal binding site B [ion binding]; other site 208963007831 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 208963007832 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 208963007833 Coenzyme A binding pocket [chemical binding]; other site 208963007834 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 208963007835 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 208963007836 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 208963007837 Surface antigen; Region: Bac_surface_Ag; pfam01103 208963007838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 208963007839 Family of unknown function (DUF490); Region: DUF490; pfam04357 208963007840 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 208963007841 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 208963007842 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963007843 Putative methyltransferase; Region: Methyltransf_20; pfam12147 208963007844 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 208963007845 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 208963007846 active site 208963007847 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 208963007848 active site 208963007849 catalytic residues [active] 208963007850 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 208963007851 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 208963007852 putative acyl-acceptor binding pocket; other site 208963007853 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 208963007854 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 208963007855 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 208963007856 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963007857 active site 208963007858 catalytic tetrad [active] 208963007859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007860 LysR family transcriptional regulator; Provisional; Region: PRK14997 208963007861 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 208963007862 putative effector binding pocket; other site 208963007863 putative dimerization interface [polypeptide binding]; other site 208963007864 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 208963007865 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 208963007866 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 208963007867 dimer interface [polypeptide binding]; other site 208963007868 catalytic triad [active] 208963007869 peroxidatic and resolving cysteines [active] 208963007870 putative aminotransferase; Provisional; Region: PRK09105 208963007871 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 208963007872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963007873 homodimer interface [polypeptide binding]; other site 208963007874 catalytic residue [active] 208963007875 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 208963007876 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 208963007877 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963007878 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963007879 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963007880 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 208963007881 Protein export membrane protein; Region: SecD_SecF; cl14618 208963007882 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 208963007883 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 208963007884 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 208963007885 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 208963007886 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 208963007887 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 208963007888 dimerization interface [polypeptide binding]; other site 208963007889 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 208963007890 dimer interface [polypeptide binding]; other site 208963007891 phosphorylation site [posttranslational modification] 208963007892 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963007893 ATP binding site [chemical binding]; other site 208963007894 Mg2+ binding site [ion binding]; other site 208963007895 G-X-G motif; other site 208963007896 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 208963007897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963007898 active site 208963007899 phosphorylation site [posttranslational modification] 208963007900 intermolecular recognition site; other site 208963007901 dimerization interface [polypeptide binding]; other site 208963007902 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 208963007903 DNA binding site [nucleotide binding] 208963007904 Outer membrane efflux protein; Region: OEP; pfam02321 208963007905 Outer membrane efflux protein; Region: OEP; pfam02321 208963007906 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963007907 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 208963007908 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963007909 protein fragment, probably inactive 208963007910 protein fragment, probably inactive 208963007911 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963007912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963007913 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963007914 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963007915 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 208963007916 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 208963007917 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 208963007918 putative alpha subunit interface [polypeptide binding]; other site 208963007919 putative active site [active] 208963007920 putative substrate binding site [chemical binding]; other site 208963007921 Fe binding site [ion binding]; other site 208963007922 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 208963007923 inter-subunit interface; other site 208963007924 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 208963007925 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 208963007926 catalytic loop [active] 208963007927 iron binding site [ion binding]; other site 208963007928 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 208963007929 FAD binding pocket [chemical binding]; other site 208963007930 FAD binding motif [chemical binding]; other site 208963007931 phosphate binding motif [ion binding]; other site 208963007932 beta-alpha-beta structure motif; other site 208963007933 NAD binding pocket [chemical binding]; other site 208963007934 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 208963007935 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 208963007936 putative NAD(P) binding site [chemical binding]; other site 208963007937 active site 208963007938 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 208963007939 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 208963007940 catalytic loop [active] 208963007941 iron binding site [ion binding]; other site 208963007942 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 208963007943 FAD binding pocket [chemical binding]; other site 208963007944 FAD binding motif [chemical binding]; other site 208963007945 phosphate binding motif [ion binding]; other site 208963007946 beta-alpha-beta structure motif; other site 208963007947 NAD binding pocket [chemical binding]; other site 208963007948 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 208963007949 inter-subunit interface; other site 208963007950 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 208963007951 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 208963007952 [2Fe-2S] cluster binding site [ion binding]; other site 208963007953 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 208963007954 putative alpha subunit interface [polypeptide binding]; other site 208963007955 putative active site [active] 208963007956 putative substrate binding site [chemical binding]; other site 208963007957 Fe binding site [ion binding]; other site 208963007958 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963007959 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 208963007960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007961 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 208963007962 dimerization interface [polypeptide binding]; other site 208963007963 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 208963007964 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 208963007965 octamer interface [polypeptide binding]; other site 208963007966 active site 208963007967 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CatC1; COG4829 208963007968 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 208963007969 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 208963007970 dimer interface [polypeptide binding]; other site 208963007971 active site 208963007972 outer membrane porin, OprD family; Region: OprD; pfam03573 208963007973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 208963007974 Leucine rich repeat; Region: LRR_8; pfam13855 208963007975 Leucine rich repeat; Region: LRR_8; pfam13855 208963007976 Protein kinase; unclassified specificity; Region: STYKc; smart00221 208963007977 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 208963007978 active site 208963007979 ATP binding site [chemical binding]; other site 208963007980 substrate binding site [chemical binding]; other site 208963007981 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 208963007982 activation loop (A-loop); other site 208963007983 activation loop (A-loop); other site 208963007984 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 208963007985 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963007986 putative substrate translocation pore; other site 208963007987 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 208963007988 nucleoside/Zn binding site; other site 208963007989 dimer interface [polypeptide binding]; other site 208963007990 catalytic motif [active] 208963007991 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 208963007992 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 208963007993 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 208963007994 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 208963007995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963007996 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 208963007997 dimerization interface [polypeptide binding]; other site 208963007998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 208963007999 DinB superfamily; Region: DinB_2; pfam12867 208963008000 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963008001 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 208963008002 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963008003 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963008004 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963008005 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963008006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008007 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 208963008008 putative substrate binding pocket [chemical binding]; other site 208963008009 putative dimerization interface [polypeptide binding]; other site 208963008010 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 208963008011 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 208963008012 putative NAD(P) binding site [chemical binding]; other site 208963008013 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 208963008014 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963008015 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963008016 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963008017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963008018 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963008019 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963008020 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 208963008021 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 208963008022 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 208963008023 Cytochrome c553 [Energy production and conversion]; Region: COG2863 208963008024 Cytochrome c; Region: Cytochrom_C; cl11414 208963008025 Cytochrome c [Energy production and conversion]; Region: COG3258 208963008026 Cytochrome c; Region: Cytochrom_C; pfam00034 208963008027 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963008028 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 208963008029 dimer interface [polypeptide binding]; other site 208963008030 phosphorylation site [posttranslational modification] 208963008031 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963008032 ATP binding site [chemical binding]; other site 208963008033 G-X-G motif; other site 208963008034 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 208963008035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963008036 active site 208963008037 phosphorylation site [posttranslational modification] 208963008038 intermolecular recognition site; other site 208963008039 dimerization interface [polypeptide binding]; other site 208963008040 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 208963008041 DNA binding site [nucleotide binding] 208963008042 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 208963008043 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 208963008044 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 208963008045 DsbD alpha interface [polypeptide binding]; other site 208963008046 catalytic residues [active] 208963008047 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 208963008048 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 208963008049 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 208963008050 catalytic residues [active] 208963008051 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 208963008052 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 208963008053 dimerization domain [polypeptide binding]; other site 208963008054 dimer interface [polypeptide binding]; other site 208963008055 catalytic residues [active] 208963008056 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 208963008057 Cytochrome P450; Region: p450; cl12078 208963008058 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 208963008059 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 208963008060 maleylacetoacetate isomerase; Region: maiA; TIGR01262 208963008061 C-terminal domain interface [polypeptide binding]; other site 208963008062 GSH binding site (G-site) [chemical binding]; other site 208963008063 putative dimer interface [polypeptide binding]; other site 208963008064 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 208963008065 dimer interface [polypeptide binding]; other site 208963008066 N-terminal domain interface [polypeptide binding]; other site 208963008067 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 208963008068 benzoate transport; Region: 2A0115; TIGR00895 208963008069 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963008070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963008071 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 208963008072 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 208963008073 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 208963008074 Cupin domain; Region: Cupin_2; pfam07883 208963008075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008076 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 208963008077 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 208963008078 dimerization interface [polypeptide binding]; other site 208963008079 RNA polymerase sigma factor; Provisional; Region: PRK12528 208963008080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963008081 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 208963008082 DNA binding residues [nucleotide binding] 208963008083 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963008084 FecR protein; Region: FecR; pfam04773 208963008085 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963008086 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 208963008087 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 208963008088 N-terminal plug; other site 208963008089 ligand-binding site [chemical binding]; other site 208963008090 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 208963008091 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 208963008092 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 208963008093 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 208963008094 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 208963008095 haemagglutination activity domain; Region: Haemagg_act; pfam05860 208963008096 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 208963008097 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 208963008098 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 208963008099 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963008100 RHS Repeat; Region: RHS_repeat; pfam05593 208963008101 RHS Repeat; Region: RHS_repeat; pfam05593 208963008102 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963008103 RHS Repeat; Region: RHS_repeat; pfam05593 208963008104 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 208963008105 RHS Repeat; Region: RHS_repeat; pfam05593 208963008106 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 208963008107 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963008108 RHS Repeat; Region: RHS_repeat; pfam05593 208963008109 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963008110 RHS Repeat; Region: RHS_repeat; cl11982 208963008111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963008112 Coenzyme A binding pocket [chemical binding]; other site 208963008113 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963008114 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 208963008115 S-adenosylmethionine binding site [chemical binding]; other site 208963008116 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 208963008117 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 208963008118 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 208963008119 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 208963008120 O-methyltransferase; Region: Methyltransf_2; pfam00891 208963008121 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 208963008122 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 208963008123 putative aromatic amino acid binding site; other site 208963008124 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 208963008125 Walker A motif; other site 208963008126 ATP binding site [chemical binding]; other site 208963008127 Walker B motif; other site 208963008128 arginine finger; other site 208963008129 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 208963008130 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 208963008131 active site 208963008132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963008133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008134 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 208963008135 dimerization interface [polypeptide binding]; other site 208963008136 putative effector binding pocket; other site 208963008137 glycine cleavage system protein H; Provisional; Region: PRK13380 208963008138 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 208963008139 lipoyl attachment site [posttranslational modification]; other site 208963008140 glycine dehydrogenase; Provisional; Region: PRK05367 208963008141 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 208963008142 tetramer interface [polypeptide binding]; other site 208963008143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963008144 catalytic residue [active] 208963008145 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 208963008146 tetramer interface [polypeptide binding]; other site 208963008147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963008148 catalytic residue [active] 208963008149 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 208963008150 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 208963008151 dimer interface [polypeptide binding]; other site 208963008152 active site 208963008153 glycine-pyridoxal phosphate binding site [chemical binding]; other site 208963008154 folate binding site [chemical binding]; other site 208963008155 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 208963008156 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 208963008157 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 208963008158 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 208963008159 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 208963008160 '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 208963008161 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 208963008162 putative active site [active] 208963008163 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 208963008164 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 208963008165 HflC protein; Region: hflC; TIGR01932 208963008166 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 208963008167 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 208963008168 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 208963008169 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 208963008170 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963008171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008172 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 208963008173 putative effector binding pocket; other site 208963008174 dimerization interface [polypeptide binding]; other site 208963008175 Fusaric acid resistance protein family; Region: FUSC; pfam04632 208963008176 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 208963008177 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 208963008178 multidrug resistance protein MdtN; Provisional; Region: PRK10476 208963008179 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963008180 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963008181 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 208963008182 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 208963008183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963008184 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 208963008185 DNA binding residues [nucleotide binding] 208963008186 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 208963008187 peptide synthase; Validated; Region: PRK05691 208963008188 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 208963008189 acyl-activating enzyme (AAE) consensus motif; other site 208963008190 active site 208963008191 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008192 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008193 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008194 acyl-activating enzyme (AAE) consensus motif; other site 208963008195 AMP binding site [chemical binding]; other site 208963008196 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008197 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008198 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008199 acyl-activating enzyme (AAE) consensus motif; other site 208963008200 AMP binding site [chemical binding]; other site 208963008201 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008202 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 208963008203 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008204 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008205 acyl-activating enzyme (AAE) consensus motif; other site 208963008206 AMP binding site [chemical binding]; other site 208963008207 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008208 Prophage antirepressor [Transcription]; Region: COG3617 208963008209 BRO family, N-terminal domain; Region: Bro-N; smart01040 208963008210 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 208963008211 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 208963008212 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 208963008213 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cd09735 208963008214 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 208963008215 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 208963008216 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 208963008217 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 208963008218 outer membrane porin, OprD family; Region: OprD; pfam03573 208963008219 Isochorismatase family; Region: Isochorismatase; pfam00857 208963008220 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 208963008221 catalytic triad [active] 208963008222 dimer interface [polypeptide binding]; other site 208963008223 conserved cis-peptide bond; other site 208963008224 Pirin-related protein [General function prediction only]; Region: COG1741 208963008225 Pirin; Region: Pirin; pfam02678 208963008226 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 208963008227 LysR family transcriptional regulator; Provisional; Region: PRK14997 208963008228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008229 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 208963008230 putative effector binding pocket; other site 208963008231 putative dimerization interface [polypeptide binding]; other site 208963008232 trehalase; Provisional; Region: treA; PRK13272 208963008233 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 208963008234 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 208963008235 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 208963008236 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 208963008237 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 208963008238 inhibitor-cofactor binding pocket; inhibition site 208963008239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963008240 catalytic residue [active] 208963008241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 208963008242 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 208963008243 Serine hydrolase; Region: Ser_hydrolase; cl17834 208963008244 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 208963008245 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 208963008246 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 208963008247 ABC-ATPase subunit interface; other site 208963008248 dimer interface [polypeptide binding]; other site 208963008249 putative PBP binding regions; other site 208963008250 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 208963008251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963008252 Walker A/P-loop; other site 208963008253 ATP binding site [chemical binding]; other site 208963008254 Q-loop/lid; other site 208963008255 ABC transporter signature motif; other site 208963008256 Walker B; other site 208963008257 D-loop; other site 208963008258 H-loop/switch region; other site 208963008259 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 208963008260 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 208963008261 intersubunit interface [polypeptide binding]; other site 208963008262 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 208963008263 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 208963008264 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 208963008265 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 208963008266 peptide synthase; Provisional; Region: PRK12316 208963008267 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008268 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008269 acyl-activating enzyme (AAE) consensus motif; other site 208963008270 AMP binding site [chemical binding]; other site 208963008271 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008272 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 208963008273 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008274 acyl-activating enzyme (AAE) consensus motif; other site 208963008275 AMP binding site [chemical binding]; other site 208963008276 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008277 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008278 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008279 acyl-activating enzyme (AAE) consensus motif; other site 208963008280 AMP binding site [chemical binding]; other site 208963008281 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008282 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 208963008283 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008284 acyl-activating enzyme (AAE) consensus motif; other site 208963008285 AMP binding site [chemical binding]; other site 208963008286 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008287 Condensation domain; Region: Condensation; pfam00668 208963008288 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963008289 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008290 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008291 acyl-activating enzyme (AAE) consensus motif; other site 208963008292 AMP binding site [chemical binding]; other site 208963008293 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008294 Condensation domain; Region: Condensation; pfam00668 208963008295 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963008296 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008297 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008298 acyl-activating enzyme (AAE) consensus motif; other site 208963008299 AMP binding site [chemical binding]; other site 208963008300 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008301 Condensation domain; Region: Condensation; pfam00668 208963008302 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963008303 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008304 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008305 acyl-activating enzyme (AAE) consensus motif; other site 208963008306 AMP binding site [chemical binding]; other site 208963008307 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008308 Condensation domain; Region: Condensation; pfam00668 208963008309 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963008310 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008311 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008312 acyl-activating enzyme (AAE) consensus motif; other site 208963008313 AMP binding site [chemical binding]; other site 208963008314 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008315 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 208963008316 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963008317 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 208963008318 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 208963008319 N-terminal plug; other site 208963008320 ligand-binding site [chemical binding]; other site 208963008321 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 208963008322 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963008323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963008324 Walker A/P-loop; other site 208963008325 ATP binding site [chemical binding]; other site 208963008326 Q-loop/lid; other site 208963008327 ABC transporter signature motif; other site 208963008328 Walker B; other site 208963008329 D-loop; other site 208963008330 H-loop/switch region; other site 208963008331 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 208963008332 catalytic site [active] 208963008333 Uncharacterized conserved protein [Function unknown]; Region: COG1262 208963008334 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 208963008335 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 208963008336 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 208963008337 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963008338 catalytic residue [active] 208963008339 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 208963008340 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 208963008341 active site 208963008342 dimer interface [polypeptide binding]; other site 208963008343 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963008344 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 208963008345 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 208963008346 Walker A/P-loop; other site 208963008347 ATP binding site [chemical binding]; other site 208963008348 Q-loop/lid; other site 208963008349 ABC transporter signature motif; other site 208963008350 Walker B; other site 208963008351 D-loop; other site 208963008352 H-loop/switch region; other site 208963008353 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 208963008354 FtsX-like permease family; Region: FtsX; pfam02687 208963008355 macrolide transporter subunit MacA; Provisional; Region: PRK11578 208963008356 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963008357 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963008358 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963008359 FecR protein; Region: FecR; pfam04773 208963008360 RNA polymerase sigma factor; Reviewed; Region: PRK12527 208963008361 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 208963008362 DNA binding residues [nucleotide binding] 208963008363 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 208963008364 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963008365 Penicillin amidase; Region: Penicil_amidase; pfam01804 208963008366 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 208963008367 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 208963008368 active site 208963008369 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 208963008370 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 208963008371 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963008372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008373 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 208963008374 dimerization interface [polypeptide binding]; other site 208963008375 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 208963008376 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 208963008377 phosphate binding site [ion binding]; other site 208963008378 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 208963008379 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 208963008380 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 208963008381 catalytic loop [active] 208963008382 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 208963008383 iron binding site [ion binding]; other site 208963008384 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 208963008385 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 208963008386 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963008387 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 208963008388 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963008389 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963008390 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 208963008391 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963008392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963008393 active site 208963008394 phosphorylation site [posttranslational modification] 208963008395 intermolecular recognition site; other site 208963008396 dimerization interface [polypeptide binding]; other site 208963008397 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 208963008398 DNA binding residues [nucleotide binding] 208963008399 dimerization interface [polypeptide binding]; other site 208963008400 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 208963008401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 208963008402 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963008403 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963008404 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963008405 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 208963008406 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 208963008407 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 208963008408 Walker A motif; other site 208963008409 ATP binding site [chemical binding]; other site 208963008410 Walker B motif; other site 208963008411 arginine finger; other site 208963008412 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 208963008413 Walker A motif; other site 208963008414 ATP binding site [chemical binding]; other site 208963008415 Walker B motif; other site 208963008416 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 208963008417 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 208963008418 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 208963008419 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 208963008420 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 208963008421 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 208963008422 Protein of unknown function (DUF877); Region: DUF877; pfam05943 208963008423 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 208963008424 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 208963008425 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 208963008426 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 208963008427 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 208963008428 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 208963008429 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 208963008430 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 208963008431 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 208963008432 Walker A motif; other site 208963008433 ATP binding site [chemical binding]; other site 208963008434 Walker B motif; other site 208963008435 arginine finger; other site 208963008436 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 208963008437 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 208963008438 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963008439 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 208963008440 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 208963008441 active site 208963008442 dimer interface [polypeptide binding]; other site 208963008443 non-prolyl cis peptide bond; other site 208963008444 insertion regions; other site 208963008445 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 208963008446 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 208963008447 Flavin binding site [chemical binding]; other site 208963008448 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 208963008449 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 208963008450 Walker A motif; other site 208963008451 ATP binding site [chemical binding]; other site 208963008452 Walker B motif; other site 208963008453 arginine finger; other site 208963008454 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 208963008455 Predicted ATPase [General function prediction only]; Region: COG1485 208963008456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963008457 Walker B; other site 208963008458 D-loop; other site 208963008459 H-loop/switch region; other site 208963008460 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 208963008461 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 208963008462 active site 208963008463 catalytic site [active] 208963008464 metal binding site [ion binding]; metal-binding site 208963008465 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963008466 dimer interface [polypeptide binding]; other site 208963008467 conserved gate region; other site 208963008468 ABC-ATPase subunit interface; other site 208963008469 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 208963008470 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 208963008471 Walker A/P-loop; other site 208963008472 ATP binding site [chemical binding]; other site 208963008473 Q-loop/lid; other site 208963008474 ABC transporter signature motif; other site 208963008475 Walker B; other site 208963008476 D-loop; other site 208963008477 H-loop/switch region; other site 208963008478 NIL domain; Region: NIL; pfam09383 208963008479 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 208963008480 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 208963008481 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 208963008482 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 208963008483 active site 208963008484 non-prolyl cis peptide bond; other site 208963008485 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 208963008486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963008487 active site 208963008488 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 208963008489 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963008490 active site 208963008491 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 208963008492 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 208963008493 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 208963008494 putative substrate binding site [chemical binding]; other site 208963008495 putative ATP binding site [chemical binding]; other site 208963008496 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 208963008497 N- and C-terminal domain interface [polypeptide binding]; other site 208963008498 D-xylulose kinase; Region: XylB; TIGR01312 208963008499 active site 208963008500 MgATP binding site [chemical binding]; other site 208963008501 catalytic site [active] 208963008502 metal binding site [ion binding]; metal-binding site 208963008503 xylulose binding site [chemical binding]; other site 208963008504 putative homodimer interface [polypeptide binding]; other site 208963008505 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 208963008506 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 208963008507 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 208963008508 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 208963008509 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 208963008510 Walker A/P-loop; other site 208963008511 ATP binding site [chemical binding]; other site 208963008512 Q-loop/lid; other site 208963008513 ABC transporter signature motif; other site 208963008514 Walker B; other site 208963008515 D-loop; other site 208963008516 H-loop/switch region; other site 208963008517 TOBE domain; Region: TOBE_2; pfam08402 208963008518 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 208963008519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963008520 dimer interface [polypeptide binding]; other site 208963008521 conserved gate region; other site 208963008522 ABC-ATPase subunit interface; other site 208963008523 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963008524 dimer interface [polypeptide binding]; other site 208963008525 conserved gate region; other site 208963008526 putative PBP binding loops; other site 208963008527 ABC-ATPase subunit interface; other site 208963008528 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 208963008529 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 208963008530 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963008531 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963008532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963008533 Cupin; Region: Cupin_6; pfam12852 208963008534 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963008535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963008536 Uncharacterized conserved protein [Function unknown]; Region: COG2128 208963008537 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 208963008538 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963008539 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963008540 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 208963008541 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 208963008542 Walker A/P-loop; other site 208963008543 ATP binding site [chemical binding]; other site 208963008544 Q-loop/lid; other site 208963008545 ABC transporter signature motif; other site 208963008546 Walker B; other site 208963008547 D-loop; other site 208963008548 H-loop/switch region; other site 208963008549 NMT1-like family; Region: NMT1_2; pfam13379 208963008550 NMT1/THI5 like; Region: NMT1; pfam09084 208963008551 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 208963008552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963008553 dimer interface [polypeptide binding]; other site 208963008554 conserved gate region; other site 208963008555 putative PBP binding loops; other site 208963008556 ABC-ATPase subunit interface; other site 208963008557 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 208963008558 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 208963008559 active site 208963008560 non-prolyl cis peptide bond; other site 208963008561 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 208963008562 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 208963008563 Flavin binding site [chemical binding]; other site 208963008564 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 208963008565 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 208963008566 Flavin binding site [chemical binding]; other site 208963008567 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 208963008568 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 208963008569 tetrameric interface [polypeptide binding]; other site 208963008570 activator binding site; other site 208963008571 NADP binding site [chemical binding]; other site 208963008572 substrate binding site [chemical binding]; other site 208963008573 catalytic residues [active] 208963008574 GntP family permease; Region: GntP_permease; pfam02447 208963008575 fructuronate transporter; Provisional; Region: PRK10034; cl15264 208963008576 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 208963008577 AAA domain; Region: AAA_33; pfam13671 208963008578 ATP-binding site [chemical binding]; other site 208963008579 Gluconate-6-phosphate binding site [chemical binding]; other site 208963008580 Transcriptional regulators [Transcription]; Region: PurR; COG1609 208963008581 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 208963008582 DNA binding site [nucleotide binding] 208963008583 domain linker motif; other site 208963008584 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 208963008585 putative ligand binding site [chemical binding]; other site 208963008586 putative dimerization interface [polypeptide binding]; other site 208963008587 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 208963008588 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963008589 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963008590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963008591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008592 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 208963008593 putative dimerization interface [polypeptide binding]; other site 208963008594 putative effector binding pocket; other site 208963008595 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 208963008596 Beta-lactamase; Region: Beta-lactamase; pfam00144 208963008597 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 208963008598 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 208963008599 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 208963008600 non-specific DNA binding site [nucleotide binding]; other site 208963008601 salt bridge; other site 208963008602 sequence-specific DNA binding site [nucleotide binding]; other site 208963008603 Cupin domain; Region: Cupin_2; pfam07883 208963008604 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 208963008605 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 208963008606 active site 208963008607 iron coordination sites [ion binding]; other site 208963008608 substrate binding pocket [chemical binding]; other site 208963008609 NMT1-like family; Region: NMT1_2; pfam13379 208963008610 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 208963008611 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 208963008612 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 208963008613 Walker A/P-loop; other site 208963008614 ATP binding site [chemical binding]; other site 208963008615 Q-loop/lid; other site 208963008616 ABC transporter signature motif; other site 208963008617 Walker B; other site 208963008618 D-loop; other site 208963008619 H-loop/switch region; other site 208963008620 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 208963008621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963008622 putative PBP binding loops; other site 208963008623 ABC-ATPase subunit interface; other site 208963008624 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963008625 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 208963008626 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 208963008627 acyl-activating enzyme (AAE) consensus motif; other site 208963008628 AMP binding site [chemical binding]; other site 208963008629 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008630 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 208963008631 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 208963008632 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 208963008633 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 208963008634 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 208963008635 acyl-activating enzyme (AAE) consensus motif; other site 208963008636 AMP binding site [chemical binding]; other site 208963008637 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 208963008638 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 208963008639 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963008640 Condensation domain; Region: Condensation; pfam00668 208963008641 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963008642 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 208963008643 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 208963008644 putative deacylase active site [active] 208963008645 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 208963008646 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 208963008647 putative active site [active] 208963008648 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 208963008649 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 208963008650 Interdomain contacts; other site 208963008651 Cytokine receptor motif; other site 208963008652 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 208963008653 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 208963008654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963008655 DNA-binding site [nucleotide binding]; DNA binding site 208963008656 UTRA domain; Region: UTRA; pfam07702 208963008657 putative oxidoreductase; Provisional; Region: PRK08275 208963008658 L-aspartate oxidase; Provisional; Region: PRK06175 208963008659 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 208963008660 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 208963008661 HEAT repeats; Region: HEAT_2; pfam13646 208963008662 HEAT repeats; Region: HEAT_2; pfam13646 208963008663 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 208963008664 Protein of unknown function (DUF971); Region: DUF971; cl01414 208963008665 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 208963008666 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 208963008667 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 208963008668 Trp docking motif [polypeptide binding]; other site 208963008669 putative active site [active] 208963008670 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963008671 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 208963008672 N-terminal plug; other site 208963008673 ligand-binding site [chemical binding]; other site 208963008674 Peptidase family M48; Region: Peptidase_M48; cl12018 208963008675 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 208963008676 Peptidase family M48; Region: Peptidase_M48; cl12018 208963008677 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963008678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963008679 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 208963008680 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963008681 Low molecular weight phosphatase family; Region: LMWPc; cd00115 208963008682 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 208963008683 active site 208963008684 arsenical pump membrane protein; Provisional; Region: PRK15445 208963008685 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 208963008686 transmembrane helices; other site 208963008687 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 208963008688 dimerization interface [polypeptide binding]; other site 208963008689 putative DNA binding site [nucleotide binding]; other site 208963008690 putative Zn2+ binding site [ion binding]; other site 208963008691 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 208963008692 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963008693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963008694 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 208963008695 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 208963008696 putative NAD(P) binding site [chemical binding]; other site 208963008697 putative substrate binding site [chemical binding]; other site 208963008698 catalytic Zn binding site [ion binding]; other site 208963008699 structural Zn binding site [ion binding]; other site 208963008700 dimer interface [polypeptide binding]; other site 208963008701 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 208963008702 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 208963008703 DNA binding residues [nucleotide binding] 208963008704 dimer interface [polypeptide binding]; other site 208963008705 [2Fe-2S] cluster binding site [ion binding]; other site 208963008706 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 208963008707 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 208963008708 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 208963008709 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963008710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963008711 Coenzyme A binding pocket [chemical binding]; other site 208963008712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963008713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963008714 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963008715 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 208963008716 conserved cys residue [active] 208963008717 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 208963008718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963008719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008720 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 208963008721 dimerization interface [polypeptide binding]; other site 208963008722 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963008723 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963008724 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963008725 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 208963008726 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 208963008727 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 208963008728 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 208963008729 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 208963008730 dimerization interface [polypeptide binding]; other site 208963008731 ligand binding site [chemical binding]; other site 208963008732 NADP binding site [chemical binding]; other site 208963008733 catalytic site [active] 208963008734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963008735 D-galactonate transporter; Region: 2A0114; TIGR00893 208963008736 putative substrate translocation pore; other site 208963008737 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 208963008738 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 208963008739 substrate binding site [chemical binding]; other site 208963008740 ATP binding site [chemical binding]; other site 208963008741 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 208963008742 Transcriptional regulators [Transcription]; Region: PurR; COG1609 208963008743 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 208963008744 DNA binding site [nucleotide binding] 208963008745 domain linker motif; other site 208963008746 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 208963008747 putative dimerization interface [polypeptide binding]; other site 208963008748 putative ligand binding site [chemical binding]; other site 208963008749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963008750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008751 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 208963008752 putative effector binding pocket; other site 208963008753 dimerization interface [polypeptide binding]; other site 208963008754 Cytochrome c553 [Energy production and conversion]; Region: COG2863 208963008755 Cytochrome c; Region: Cytochrom_C; cl11414 208963008756 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 208963008757 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 208963008758 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 208963008759 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 208963008760 substrate binding pocket [chemical binding]; other site 208963008761 active site 208963008762 iron coordination sites [ion binding]; other site 208963008763 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 208963008764 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 208963008765 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 208963008766 active site 208963008767 homodimer interface [polypeptide binding]; other site 208963008768 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 208963008769 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 208963008770 Helix-turn-helix domain; Region: HTH_19; pfam12844 208963008771 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 208963008772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963008773 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 208963008774 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 208963008775 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 208963008776 E3 interaction surface; other site 208963008777 lipoyl attachment site [posttranslational modification]; other site 208963008778 e3 binding domain; Region: E3_binding; pfam02817 208963008779 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 208963008780 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 208963008781 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 208963008782 alpha subunit interface [polypeptide binding]; other site 208963008783 TPP binding site [chemical binding]; other site 208963008784 heterodimer interface [polypeptide binding]; other site 208963008785 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 208963008786 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 208963008787 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 208963008788 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 208963008789 tetramer interface [polypeptide binding]; other site 208963008790 TPP-binding site [chemical binding]; other site 208963008791 heterodimer interface [polypeptide binding]; other site 208963008792 phosphorylation loop region [posttranslational modification] 208963008793 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963008794 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 208963008795 putative DNA binding site [nucleotide binding]; other site 208963008796 putative Zn2+ binding site [ion binding]; other site 208963008797 AsnC family; Region: AsnC_trans_reg; pfam01037 208963008798 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 208963008799 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 208963008800 active site 208963008801 DNA binding site [nucleotide binding] 208963008802 Int/Topo IB signature motif; other site 208963008803 catalytic residues [active] 208963008804 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 208963008805 Predicted oxidoreductase [General function prediction only]; Region: COG3573 208963008806 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 208963008807 Acyltransferase family; Region: Acyl_transf_3; pfam01757 208963008808 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 208963008809 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963008810 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 208963008811 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 208963008812 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 208963008813 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 208963008814 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963008815 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 208963008816 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 208963008817 Chain length determinant protein; Region: Wzz; cl15801 208963008818 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 208963008819 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 208963008820 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 208963008821 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 208963008822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963008823 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 208963008824 Coenzyme A binding pocket [chemical binding]; other site 208963008825 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 208963008826 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 208963008827 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 208963008828 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 208963008829 DNA binding site [nucleotide binding] 208963008830 dimer interface [polypeptide binding]; other site 208963008831 active site 208963008832 Int/Topo IB signature motif; other site 208963008833 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 208963008834 amino acid transporter; Region: 2A0306; TIGR00909 208963008835 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 208963008836 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 208963008837 tetrameric interface [polypeptide binding]; other site 208963008838 NAD binding site [chemical binding]; other site 208963008839 catalytic residues [active] 208963008840 substrate binding site [chemical binding]; other site 208963008841 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 208963008842 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 208963008843 inhibitor-cofactor binding pocket; inhibition site 208963008844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963008845 catalytic residue [active] 208963008846 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 208963008847 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 208963008848 NAD binding site [chemical binding]; other site 208963008849 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 208963008850 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 208963008851 Na binding site [ion binding]; other site 208963008852 Protein of unknown function, DUF485; Region: DUF485; pfam04341 208963008853 acyl-CoA synthetase; Validated; Region: PRK08162 208963008854 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 208963008855 acyl-activating enzyme (AAE) consensus motif; other site 208963008856 putative active site [active] 208963008857 AMP binding site [chemical binding]; other site 208963008858 putative CoA binding site [chemical binding]; other site 208963008859 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963008860 classical (c) SDRs; Region: SDR_c; cd05233 208963008861 NAD(P) binding site [chemical binding]; other site 208963008862 active site 208963008863 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963008864 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 208963008865 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 208963008866 active site 208963008867 Phosphotransferase enzyme family; Region: APH; pfam01636 208963008868 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 208963008869 putative active site [active] 208963008870 putative substrate binding site [chemical binding]; other site 208963008871 ATP binding site [chemical binding]; other site 208963008872 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 208963008873 PAS domain; Region: PAS_9; pfam13426 208963008874 putative active site [active] 208963008875 heme pocket [chemical binding]; other site 208963008876 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 208963008877 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 208963008878 Walker A motif; other site 208963008879 ATP binding site [chemical binding]; other site 208963008880 Walker B motif; other site 208963008881 arginine finger; other site 208963008882 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963008883 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 208963008884 mce related protein; Region: MCE; pfam02470 208963008885 mce related protein; Region: MCE; pfam02470 208963008886 mce related protein; Region: MCE; pfam02470 208963008887 mce related protein; Region: MCE; pfam02470 208963008888 mce related protein; Region: MCE; pfam02470 208963008889 mce related protein; Region: MCE; pfam02470 208963008890 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 208963008891 Paraquat-inducible protein A; Region: PqiA; pfam04403 208963008892 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 208963008893 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 208963008894 dimer interface [polypeptide binding]; other site 208963008895 NADP binding site [chemical binding]; other site 208963008896 catalytic residues [active] 208963008897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 208963008898 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 208963008899 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 208963008900 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 208963008901 putative active site pocket [active] 208963008902 putative metal binding site [ion binding]; other site 208963008903 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 208963008904 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963008905 putative substrate translocation pore; other site 208963008906 outer membrane porin, OprD family; Region: OprD; pfam03573 208963008907 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 208963008908 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 208963008909 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 208963008910 Amidohydrolase; Region: Amidohydro_2; pfam04909 208963008911 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963008912 D-galactonate transporter; Region: 2A0114; TIGR00893 208963008913 putative substrate translocation pore; other site 208963008914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 208963008915 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 208963008916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 208963008917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963008918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963008919 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 208963008920 dimerization interface [polypeptide binding]; other site 208963008921 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963008922 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 208963008923 substrate binding pocket [chemical binding]; other site 208963008924 membrane-bound complex binding site; other site 208963008925 hinge residues; other site 208963008926 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963008927 dimer interface [polypeptide binding]; other site 208963008928 conserved gate region; other site 208963008929 putative PBP binding loops; other site 208963008930 ABC-ATPase subunit interface; other site 208963008931 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963008932 dimer interface [polypeptide binding]; other site 208963008933 conserved gate region; other site 208963008934 putative PBP binding loops; other site 208963008935 ABC-ATPase subunit interface; other site 208963008936 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 208963008937 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 208963008938 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 208963008939 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 208963008940 Uncharacterized conserved protein [Function unknown]; Region: COG1359 208963008941 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 208963008942 Prostaglandin dehydrogenases; Region: PGDH; cd05288 208963008943 NAD(P) binding site [chemical binding]; other site 208963008944 substrate binding site [chemical binding]; other site 208963008945 dimer interface [polypeptide binding]; other site 208963008946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963008947 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963008948 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 208963008949 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963008950 hydroxyglutarate oxidase; Provisional; Region: PRK11728 208963008951 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 208963008952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963008953 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 208963008954 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 208963008955 catalytic loop [active] 208963008956 iron binding site [ion binding]; other site 208963008957 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 208963008958 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 208963008959 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 208963008960 active site 208963008961 Low affinity iron permease; Region: Iron_permease; pfam04120 208963008962 carboxylate-amine ligase; Provisional; Region: PRK13515 208963008963 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 208963008964 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 208963008965 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 208963008966 S-adenosylmethionine binding site [chemical binding]; other site 208963008967 Yip1 domain; Region: Yip1; pfam04893 208963008968 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 208963008969 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 208963008970 putative active site [active] 208963008971 heme pocket [chemical binding]; other site 208963008972 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 208963008973 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 208963008974 putative active site [active] 208963008975 heme pocket [chemical binding]; other site 208963008976 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 208963008977 dimer interface [polypeptide binding]; other site 208963008978 phosphorylation site [posttranslational modification] 208963008979 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963008980 ATP binding site [chemical binding]; other site 208963008981 Mg2+ binding site [ion binding]; other site 208963008982 G-X-G motif; other site 208963008983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963008984 active site 208963008985 phosphorylation site [posttranslational modification] 208963008986 intermolecular recognition site; other site 208963008987 dimerization interface [polypeptide binding]; other site 208963008988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963008989 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 208963008990 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 208963008991 metal binding site [ion binding]; metal-binding site 208963008992 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 208963008993 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 208963008994 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963008995 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 208963008996 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 208963008997 glycogen synthase; Provisional; Region: glgA; PRK00654 208963008998 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 208963008999 ADP-binding pocket [chemical binding]; other site 208963009000 homodimer interface [polypeptide binding]; other site 208963009001 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 208963009002 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 208963009003 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 208963009004 catalytic site [active] 208963009005 active site 208963009006 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 208963009007 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 208963009008 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 208963009009 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 208963009010 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 208963009011 active site 208963009012 catalytic site [active] 208963009013 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 208963009014 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 208963009015 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 208963009016 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 208963009017 active site 208963009018 catalytic site [active] 208963009019 FOG: CBS domain [General function prediction only]; Region: COG0517 208963009020 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 208963009021 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 208963009022 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 208963009023 NAD binding site [chemical binding]; other site 208963009024 catalytic Zn binding site [ion binding]; other site 208963009025 structural Zn binding site [ion binding]; other site 208963009026 Uncharacterized conserved protein [Function unknown]; Region: COG1801 208963009027 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 208963009028 putative catalytic site [active] 208963009029 putative metal binding site [ion binding]; other site 208963009030 putative phosphate binding site [ion binding]; other site 208963009031 cardiolipin synthase 2; Provisional; Region: PRK11263 208963009032 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 208963009033 putative active site [active] 208963009034 catalytic site [active] 208963009035 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 208963009036 putative active site [active] 208963009037 catalytic site [active] 208963009038 Predicted integral membrane protein [Function unknown]; Region: COG0392 208963009039 glycogen branching enzyme; Provisional; Region: PRK05402 208963009040 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 208963009041 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 208963009042 active site 208963009043 catalytic site [active] 208963009044 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 208963009045 trehalose synthase; Region: treS_nterm; TIGR02456 208963009046 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 208963009047 active site 208963009048 catalytic site [active] 208963009049 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 208963009050 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 208963009051 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 208963009052 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 208963009053 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 208963009054 active site 208963009055 homodimer interface [polypeptide binding]; other site 208963009056 catalytic site [active] 208963009057 acceptor binding site [chemical binding]; other site 208963009058 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 208963009059 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 208963009060 putative DNA binding site [nucleotide binding]; other site 208963009061 putative homodimer interface [polypeptide binding]; other site 208963009062 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 208963009063 MgtC family; Region: MgtC; pfam02308 208963009064 hydroperoxidase II; Provisional; Region: katE; PRK11249 208963009065 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 208963009066 tetramer interface [polypeptide binding]; other site 208963009067 heme binding pocket [chemical binding]; other site 208963009068 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 208963009069 domain interactions; other site 208963009070 General stress protein [General function prediction only]; Region: GsiB; COG3729 208963009071 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 208963009072 homodimer interface [polypeptide binding]; other site 208963009073 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 208963009074 active site pocket [active] 208963009075 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 208963009076 short chain dehydrogenase; Provisional; Region: PRK06701 208963009077 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 208963009078 NAD binding site [chemical binding]; other site 208963009079 metal binding site [ion binding]; metal-binding site 208963009080 active site 208963009081 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 208963009082 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 208963009083 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 208963009084 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 208963009085 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 208963009086 active site 208963009087 DNA binding site [nucleotide binding] 208963009088 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 208963009089 DNA binding site [nucleotide binding] 208963009090 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 208963009091 nucleotide binding site [chemical binding]; other site 208963009092 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963009093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 208963009094 active site 208963009095 phosphorylation site [posttranslational modification] 208963009096 intermolecular recognition site; other site 208963009097 dimerization interface [polypeptide binding]; other site 208963009098 Predicted membrane protein [Function unknown]; Region: COG2323 208963009099 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 208963009100 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 208963009101 Predicted outer membrane protein [Function unknown]; Region: COG3652 208963009102 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 208963009103 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 208963009104 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963009105 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 208963009106 Fimbrial protein; Region: Fimbrial; cl01416 208963009107 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 208963009108 PapC N-terminal domain; Region: PapC_N; pfam13954 208963009109 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 208963009110 PapC C-terminal domain; Region: PapC_C; pfam13953 208963009111 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 208963009112 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963009113 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 208963009114 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 208963009115 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 208963009116 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 208963009117 Active Sites [active] 208963009118 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 208963009119 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 208963009120 ParB-like nuclease domain; Region: ParBc; pfam02195 208963009121 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 208963009122 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 208963009123 NAD(P) binding site [chemical binding]; other site 208963009124 catalytic residues [active] 208963009125 choline dehydrogenase; Validated; Region: PRK02106 208963009126 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963009127 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 208963009128 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963009129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009130 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 208963009131 putative effector binding pocket; other site 208963009132 dimerization interface [polypeptide binding]; other site 208963009133 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 208963009134 hydrophobic ligand binding site; other site 208963009135 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 208963009136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009137 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 208963009138 substrate binding pocket [chemical binding]; other site 208963009139 dimerization interface [polypeptide binding]; other site 208963009140 SnoaL-like domain; Region: SnoaL_2; pfam12680 208963009141 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 208963009142 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 208963009143 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 208963009144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963009145 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 208963009146 DNA binding site [nucleotide binding] 208963009147 active site 208963009148 hypothetical protein; Provisional; Region: PRK05463 208963009149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963009150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009151 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 208963009152 dimerization interface [polypeptide binding]; other site 208963009153 benzoate transport; Region: 2A0115; TIGR00895 208963009154 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963009155 putative substrate translocation pore; other site 208963009156 outer membrane porin, OprD family; Region: OprD; pfam03573 208963009157 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 208963009158 putative active site [active] 208963009159 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 208963009160 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 208963009161 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 208963009162 Predicted outer membrane protein [Function unknown]; Region: COG3652 208963009163 thiamine pyrophosphate protein; Provisional; Region: PRK08273 208963009164 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 208963009165 PYR/PP interface [polypeptide binding]; other site 208963009166 dimer interface [polypeptide binding]; other site 208963009167 tetramer interface [polypeptide binding]; other site 208963009168 TPP binding site [chemical binding]; other site 208963009169 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963009170 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 208963009171 TPP-binding site [chemical binding]; other site 208963009172 short chain dehydrogenase; Provisional; Region: PRK08267 208963009173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963009174 NAD(P) binding site [chemical binding]; other site 208963009175 active site 208963009176 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 208963009177 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 208963009178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 208963009179 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963009180 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963009181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963009182 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963009183 FecR protein; Region: FecR; pfam04773 208963009184 RNA polymerase sigma factor; Provisional; Region: PRK12525 208963009185 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963009186 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 208963009187 DNA binding residues [nucleotide binding] 208963009188 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 208963009189 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 208963009190 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963009191 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 208963009192 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 208963009193 dimer interface [polypeptide binding]; other site 208963009194 active site 208963009195 non-prolyl cis peptide bond; other site 208963009196 insertion regions; other site 208963009197 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963009198 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963009199 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 208963009200 N-terminal plug; other site 208963009201 ligand-binding site [chemical binding]; other site 208963009202 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963009203 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 208963009204 S-adenosylmethionine binding site [chemical binding]; other site 208963009205 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963009206 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 208963009207 inter-subunit interface; other site 208963009208 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 208963009209 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 208963009210 active site 208963009211 dimer interface [polypeptide binding]; other site 208963009212 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 208963009213 Ligand Binding Site [chemical binding]; other site 208963009214 Molecular Tunnel; other site 208963009215 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 208963009216 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 208963009217 [2Fe-2S] cluster binding site [ion binding]; other site 208963009218 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 208963009219 putative alpha subunit interface [polypeptide binding]; other site 208963009220 putative active site [active] 208963009221 putative substrate binding site [chemical binding]; other site 208963009222 Fe binding site [ion binding]; other site 208963009223 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963009224 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 208963009225 putative DNA binding site [nucleotide binding]; other site 208963009226 putative Zn2+ binding site [ion binding]; other site 208963009227 AsnC family; Region: AsnC_trans_reg; pfam01037 208963009228 arylformamidase; Region: trp_arylform; TIGR03035 208963009229 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 208963009230 kynureninase; Region: kynureninase; TIGR01814 208963009231 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963009232 catalytic residue [active] 208963009233 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 208963009234 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963009235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963009236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009237 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 208963009238 dimerization interface [polypeptide binding]; other site 208963009239 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 208963009240 PAS domain S-box; Region: sensory_box; TIGR00229 208963009241 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 208963009242 putative active site [active] 208963009243 heme pocket [chemical binding]; other site 208963009244 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963009245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963009246 metal binding site [ion binding]; metal-binding site 208963009247 active site 208963009248 I-site; other site 208963009249 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 208963009250 elongation factor G; Reviewed; Region: PRK00007 208963009251 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 208963009252 G1 box; other site 208963009253 putative GEF interaction site [polypeptide binding]; other site 208963009254 GTP/Mg2+ binding site [chemical binding]; other site 208963009255 Switch I region; other site 208963009256 G2 box; other site 208963009257 G3 box; other site 208963009258 Switch II region; other site 208963009259 G4 box; other site 208963009260 G5 box; other site 208963009261 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 208963009262 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 208963009263 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 208963009264 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 208963009265 N-terminal plug; other site 208963009266 ligand-binding site [chemical binding]; other site 208963009267 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963009268 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 208963009269 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 208963009270 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 208963009271 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 208963009272 MFS_1 like family; Region: MFS_1_like; pfam12832 208963009273 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 208963009274 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 208963009275 motif II; other site 208963009276 Uncharacterized conserved protein [Function unknown]; Region: COG1434 208963009277 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 208963009278 putative active site [active] 208963009279 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 208963009280 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 208963009281 Multicopper oxidase; Region: Cu-oxidase; pfam00394 208963009282 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 208963009283 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 208963009284 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: PcoB; COG3667 208963009285 Uncharacterized conserved protein [Function unknown]; Region: COG3673 208963009286 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 208963009287 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 208963009288 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963009289 catalytic residue [active] 208963009290 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 208963009291 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 208963009292 Walker A/P-loop; other site 208963009293 ATP binding site [chemical binding]; other site 208963009294 Q-loop/lid; other site 208963009295 ABC transporter signature motif; other site 208963009296 Walker B; other site 208963009297 D-loop; other site 208963009298 H-loop/switch region; other site 208963009299 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 208963009300 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 208963009301 Walker A/P-loop; other site 208963009302 ATP binding site [chemical binding]; other site 208963009303 Q-loop/lid; other site 208963009304 ABC transporter signature motif; other site 208963009305 Walker B; other site 208963009306 D-loop; other site 208963009307 H-loop/switch region; other site 208963009308 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 208963009309 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 208963009310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963009311 dimer interface [polypeptide binding]; other site 208963009312 conserved gate region; other site 208963009313 ABC-ATPase subunit interface; other site 208963009314 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 208963009315 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963009316 dimer interface [polypeptide binding]; other site 208963009317 conserved gate region; other site 208963009318 ABC-ATPase subunit interface; other site 208963009319 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 208963009320 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 208963009321 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 208963009322 N-terminal plug; other site 208963009323 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963009324 ligand-binding site [chemical binding]; other site 208963009325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963009326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009327 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 208963009328 putative effector binding pocket; other site 208963009329 dimerization interface [polypeptide binding]; other site 208963009330 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 208963009331 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963009332 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 208963009333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009334 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 208963009335 dimerization interface [polypeptide binding]; other site 208963009336 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 208963009337 active site clefts [active] 208963009338 zinc binding site [ion binding]; other site 208963009339 dimer interface [polypeptide binding]; other site 208963009340 cyanate hydratase; Validated; Region: PRK02866 208963009341 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 208963009342 oligomer interface [polypeptide binding]; other site 208963009343 active site 208963009344 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963009345 FecR protein; Region: FecR; pfam04773 208963009346 RNA polymerase sigma factor; Provisional; Region: PRK12525 208963009347 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963009348 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 208963009349 DNA binding residues [nucleotide binding] 208963009350 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 208963009351 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 208963009352 Uncharacterized conserved protein [Function unknown]; Region: COG1359 208963009353 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 208963009354 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963009355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963009356 Haemolytic domain; Region: Haemolytic; pfam01809 208963009357 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 208963009358 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 208963009359 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 208963009360 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 208963009361 probable active site [active] 208963009362 serine/threonine transporter SstT; Provisional; Region: PRK13628 208963009363 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 208963009364 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 208963009365 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 208963009366 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 208963009367 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963009368 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 208963009369 Predicted membrane protein [Function unknown]; Region: COG4392 208963009370 Methyltransferase domain; Region: Methyltransf_23; pfam13489 208963009371 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 208963009372 thiamine pyrophosphate protein; Validated; Region: PRK08199 208963009373 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 208963009374 PYR/PP interface [polypeptide binding]; other site 208963009375 dimer interface [polypeptide binding]; other site 208963009376 TPP binding site [chemical binding]; other site 208963009377 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963009378 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 208963009379 TPP-binding site [chemical binding]; other site 208963009380 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 208963009381 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 208963009382 FAD binding pocket [chemical binding]; other site 208963009383 FAD binding motif [chemical binding]; other site 208963009384 phosphate binding motif [ion binding]; other site 208963009385 NAD binding pocket [chemical binding]; other site 208963009386 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 208963009387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963009388 DNA-binding site [nucleotide binding]; DNA binding site 208963009389 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 208963009390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963009391 homodimer interface [polypeptide binding]; other site 208963009392 catalytic residue [active] 208963009393 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 208963009394 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963009395 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 208963009396 putative DNA binding site [nucleotide binding]; other site 208963009397 putative Zn2+ binding site [ion binding]; other site 208963009398 AsnC family; Region: AsnC_trans_reg; pfam01037 208963009399 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 208963009400 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 208963009401 glutathione reductase; Validated; Region: PRK06116 208963009402 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963009403 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963009404 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 208963009405 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963009406 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 208963009407 active site 208963009408 metal binding site [ion binding]; metal-binding site 208963009409 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 208963009410 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 208963009411 active site 208963009412 tetramer interface; other site 208963009413 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 208963009414 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 208963009415 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 208963009416 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 208963009417 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 208963009418 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 208963009419 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963009420 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 208963009421 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963009422 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963009423 multidrug efflux protein; Reviewed; Region: PRK09577 208963009424 Protein export membrane protein; Region: SecD_SecF; cl14618 208963009425 Protein export membrane protein; Region: SecD_SecF; cl14618 208963009426 SdiA-regulated; Region: SdiA-regulated; pfam06977 208963009427 SdiA-regulated; Region: SdiA-regulated; cd09971 208963009428 putative active site [active] 208963009429 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 208963009430 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 208963009431 DNA binding residues [nucleotide binding] 208963009432 putative dimer interface [polypeptide binding]; other site 208963009433 isovaleryl-CoA dehydrogenase; Region: PLN02519 208963009434 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 208963009435 substrate binding site [chemical binding]; other site 208963009436 FAD binding site [chemical binding]; other site 208963009437 catalytic base [active] 208963009438 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 208963009439 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 208963009440 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 208963009441 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 208963009442 substrate binding site [chemical binding]; other site 208963009443 oxyanion hole (OAH) forming residues; other site 208963009444 trimer interface [polypeptide binding]; other site 208963009445 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 208963009446 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963009447 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963009448 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 208963009449 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 208963009450 carboxyltransferase (CT) interaction site; other site 208963009451 biotinylation site [posttranslational modification]; other site 208963009452 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 208963009453 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 208963009454 active site 208963009455 catalytic residues [active] 208963009456 metal binding site [ion binding]; metal-binding site 208963009457 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 208963009458 Transcriptional regulator [Transcription]; Region: IclR; COG1414 208963009459 Bacterial transcriptional regulator; Region: IclR; pfam01614 208963009460 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 208963009461 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 208963009462 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 208963009463 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 208963009464 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 208963009465 C-terminal domain interface [polypeptide binding]; other site 208963009466 GSH binding site (G-site) [chemical binding]; other site 208963009467 maleylacetoacetate isomerase; Region: maiA; TIGR01262 208963009468 putative dimer interface [polypeptide binding]; other site 208963009469 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 208963009470 dimer interface [polypeptide binding]; other site 208963009471 N-terminal domain interface [polypeptide binding]; other site 208963009472 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 208963009473 benzoate transport; Region: 2A0115; TIGR00895 208963009474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963009475 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963009476 PAS domain; Region: PAS; smart00091 208963009477 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 208963009478 putative active site [active] 208963009479 heme pocket [chemical binding]; other site 208963009480 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 208963009481 Walker B motif; other site 208963009482 arginine finger; other site 208963009483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963009484 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 208963009485 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 208963009486 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 208963009487 NAD binding site [chemical binding]; other site 208963009488 homotetramer interface [polypeptide binding]; other site 208963009489 homodimer interface [polypeptide binding]; other site 208963009490 substrate binding site [chemical binding]; other site 208963009491 active site 208963009492 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 208963009493 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 208963009494 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 208963009495 dimer interface [polypeptide binding]; other site 208963009496 active site 208963009497 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 208963009498 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 208963009499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963009500 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009501 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 208963009502 putative dimerization interface [polypeptide binding]; other site 208963009503 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 208963009504 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 208963009505 acyl-activating enzyme (AAE) consensus motif; other site 208963009506 putative AMP binding site [chemical binding]; other site 208963009507 putative active site [active] 208963009508 putative CoA binding site [chemical binding]; other site 208963009509 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 208963009510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 208963009511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3554 208963009512 major facilitator superfamily transporter; Provisional; Region: PRK05122 208963009513 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963009514 putative substrate translocation pore; other site 208963009515 PAS domain; Region: PAS_8; pfam13188 208963009516 PAS domain S-box; Region: sensory_box; TIGR00229 208963009517 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 208963009518 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 208963009519 dimer interface [polypeptide binding]; other site 208963009520 phosphorylation site [posttranslational modification] 208963009521 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963009522 ATP binding site [chemical binding]; other site 208963009523 G-X-G motif; other site 208963009524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963009525 active site 208963009526 phosphorylation site [posttranslational modification] 208963009527 intermolecular recognition site; other site 208963009528 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 208963009529 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 208963009530 putative active site [active] 208963009531 metal binding site [ion binding]; metal-binding site 208963009532 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 208963009533 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963009534 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 208963009535 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 208963009536 FeS/SAM binding site; other site 208963009537 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 208963009538 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 208963009539 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 208963009540 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 208963009541 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 208963009542 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 208963009543 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 208963009544 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 208963009545 NAD(P) binding site [chemical binding]; other site 208963009546 catalytic residues [active] 208963009547 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963009548 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 208963009549 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 208963009550 dimer interface [polypeptide binding]; other site 208963009551 Trp docking motif [polypeptide binding]; other site 208963009552 active site 208963009553 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 208963009554 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 208963009555 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 208963009556 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 208963009557 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 208963009558 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 208963009559 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963009560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963009561 active site 208963009562 phosphorylation site [posttranslational modification] 208963009563 intermolecular recognition site; other site 208963009564 dimerization interface [polypeptide binding]; other site 208963009565 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 208963009566 DNA binding residues [nucleotide binding] 208963009567 dimerization interface [polypeptide binding]; other site 208963009568 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 208963009569 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963009570 ATP binding site [chemical binding]; other site 208963009571 Mg2+ binding site [ion binding]; other site 208963009572 G-X-G motif; other site 208963009573 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963009574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963009575 active site 208963009576 phosphorylation site [posttranslational modification] 208963009577 intermolecular recognition site; other site 208963009578 dimerization interface [polypeptide binding]; other site 208963009579 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 208963009580 DNA binding residues [nucleotide binding] 208963009581 dimerization interface [polypeptide binding]; other site 208963009582 PAS fold; Region: PAS_7; pfam12860 208963009583 PAS fold; Region: PAS_7; pfam12860 208963009584 PAS fold; Region: PAS_4; pfam08448 208963009585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963009586 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 208963009587 dimer interface [polypeptide binding]; other site 208963009588 phosphorylation site [posttranslational modification] 208963009589 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963009590 ATP binding site [chemical binding]; other site 208963009591 Mg2+ binding site [ion binding]; other site 208963009592 G-X-G motif; other site 208963009593 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963009594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963009595 active site 208963009596 phosphorylation site [posttranslational modification] 208963009597 intermolecular recognition site; other site 208963009598 dimerization interface [polypeptide binding]; other site 208963009599 Uncharacterized conserved protein [Function unknown]; Region: COG3287 208963009600 FIST N domain; Region: FIST; pfam08495 208963009601 FIST C domain; Region: FIST_C; pfam10442 208963009602 Gram-negative porin; Region: Porin_4; pfam13609 208963009603 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 208963009604 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 208963009605 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 208963009606 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 208963009607 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 208963009608 Sulfatase; Region: Sulfatase; pfam00884 208963009609 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 208963009610 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 208963009611 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 208963009612 putative substrate binding pocket [chemical binding]; other site 208963009613 trimer interface [polypeptide binding]; other site 208963009614 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 208963009615 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963009616 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963009617 ABC transporter; Region: ABC_tran_2; pfam12848 208963009618 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963009619 azoreductase; Reviewed; Region: PRK00170 208963009620 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963009621 LysR family transcriptional regulator; Provisional; Region: PRK14997 208963009622 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009623 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 208963009624 dimerization interface [polypeptide binding]; other site 208963009625 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 208963009626 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 208963009627 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 208963009628 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 208963009629 AAA domain; Region: AAA_28; pfam13521 208963009630 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 208963009631 putative active site [active] 208963009632 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 208963009633 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 208963009634 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 208963009635 substrate binding site [chemical binding]; other site 208963009636 dimer interface [polypeptide binding]; other site 208963009637 ATP binding site [chemical binding]; other site 208963009638 Transcriptional regulators [Transcription]; Region: PurR; COG1609 208963009639 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 208963009640 DNA binding site [nucleotide binding] 208963009641 domain linker motif; other site 208963009642 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 208963009643 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 208963009644 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 208963009645 TM-ABC transporter signature motif; other site 208963009646 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 208963009647 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 208963009648 Walker A/P-loop; other site 208963009649 ATP binding site [chemical binding]; other site 208963009650 Q-loop/lid; other site 208963009651 ABC transporter signature motif; other site 208963009652 Walker B; other site 208963009653 D-loop; other site 208963009654 H-loop/switch region; other site 208963009655 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 208963009656 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 208963009657 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 208963009658 ligand binding site [chemical binding]; other site 208963009659 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963009660 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 208963009661 Walker A motif; other site 208963009662 ATP binding site [chemical binding]; other site 208963009663 Walker B motif; other site 208963009664 arginine finger; other site 208963009665 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963009666 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 208963009667 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 208963009668 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963009669 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 208963009670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963009671 Coenzyme A binding pocket [chemical binding]; other site 208963009672 Peptidase_C39 like family; Region: DUF3335; pfam11814 208963009673 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 208963009674 putative heme binding pocket [chemical binding]; other site 208963009675 AAA domain; Region: AAA_13; pfam13166 208963009676 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 208963009677 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 208963009678 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 208963009679 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963009680 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 208963009681 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 208963009682 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 208963009683 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 208963009684 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 208963009685 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 208963009686 putative active site [active] 208963009687 heme pocket [chemical binding]; other site 208963009688 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 208963009689 putative active site [active] 208963009690 heme pocket [chemical binding]; other site 208963009691 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 208963009692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963009693 dimer interface [polypeptide binding]; other site 208963009694 putative CheW interface [polypeptide binding]; other site 208963009695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 208963009696 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 208963009697 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 208963009698 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 208963009699 THF binding site; other site 208963009700 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 208963009701 substrate binding site [chemical binding]; other site 208963009702 THF binding site; other site 208963009703 zinc-binding site [ion binding]; other site 208963009704 Uncharacterized conserved protein [Function unknown]; Region: COG1944 208963009705 YcaO-like family; Region: YcaO; pfam02624 208963009706 Uncharacterized conserved protein [Function unknown]; Region: COG4744 208963009707 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 208963009708 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 208963009709 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 208963009710 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 208963009711 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 208963009712 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 208963009713 N-terminal plug; other site 208963009714 ligand-binding site [chemical binding]; other site 208963009715 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963009716 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 208963009717 S-adenosylmethionine binding site [chemical binding]; other site 208963009718 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 208963009719 ATP cone domain; Region: ATP-cone; pfam03477 208963009720 Class III ribonucleotide reductase; Region: RNR_III; cd01675 208963009721 effector binding site; other site 208963009722 active site 208963009723 Zn binding site [ion binding]; other site 208963009724 glycine loop; other site 208963009725 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 208963009726 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 208963009727 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 208963009728 FeS/SAM binding site; other site 208963009729 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963009730 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963009731 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 208963009732 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 208963009733 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 208963009734 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 208963009735 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 208963009736 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 208963009737 RNA polymerase sigma factor; Provisional; Region: PRK12528 208963009738 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963009739 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 208963009740 DNA binding residues [nucleotide binding] 208963009741 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963009742 FecR protein; Region: FecR; pfam04773 208963009743 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963009744 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 208963009745 N-terminal plug; other site 208963009746 ligand-binding site [chemical binding]; other site 208963009747 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 208963009748 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 208963009749 RNA polymerase Rpb5, C-terminal domain; Region: RNA_pol_Rpb5_C; cl00883 208963009750 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 208963009751 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963009752 putative substrate translocation pore; other site 208963009753 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963009754 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 208963009755 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 208963009756 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 208963009757 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 208963009758 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 208963009759 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 208963009760 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 208963009761 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 208963009762 Glutamine amidotransferase class-I; Region: GATase; pfam00117 208963009763 glutamine binding [chemical binding]; other site 208963009764 catalytic triad [active] 208963009765 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 208963009766 hydrophobic substrate binding pocket; other site 208963009767 Isochorismatase family; Region: Isochorismatase; pfam00857 208963009768 active site 208963009769 conserved cis-peptide bond; other site 208963009770 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 208963009771 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 208963009772 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 208963009773 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 208963009774 Autoinducer binding domain; Region: Autoind_bind; pfam03472 208963009775 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 208963009776 DNA binding residues [nucleotide binding] 208963009777 dimerization interface [polypeptide binding]; other site 208963009778 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 208963009779 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 208963009780 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 208963009781 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 208963009782 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 208963009783 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 208963009784 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 208963009785 active site 208963009786 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963009787 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 208963009788 putative C-terminal domain interface [polypeptide binding]; other site 208963009789 putative GSH binding site (G-site) [chemical binding]; other site 208963009790 putative dimer interface [polypeptide binding]; other site 208963009791 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 208963009792 putative N-terminal domain interface [polypeptide binding]; other site 208963009793 putative dimer interface [polypeptide binding]; other site 208963009794 putative substrate binding pocket (H-site) [chemical binding]; other site 208963009795 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963009796 DNA polymerase II; Reviewed; Region: PRK05762 208963009797 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 208963009798 active site 208963009799 catalytic site [active] 208963009800 substrate binding site [chemical binding]; other site 208963009801 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 208963009802 active site 208963009803 metal-binding site 208963009804 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963009805 Coenzyme A binding pocket [chemical binding]; other site 208963009806 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 208963009807 sequence-specific DNA binding site [nucleotide binding]; other site 208963009808 salt bridge; other site 208963009809 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 208963009810 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 208963009811 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 208963009812 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 208963009813 catalytic loop [active] 208963009814 iron binding site [ion binding]; other site 208963009815 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 208963009816 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 208963009817 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963009818 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 208963009819 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963009820 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963009821 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 208963009822 non-specific DNA binding site [nucleotide binding]; other site 208963009823 salt bridge; other site 208963009824 sequence-specific DNA binding site [nucleotide binding]; other site 208963009825 HD domain; Region: HD_3; pfam13023 208963009826 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 208963009827 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963009828 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963009829 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 208963009830 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 208963009831 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963009832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963009833 Walker A/P-loop; other site 208963009834 ATP binding site [chemical binding]; other site 208963009835 Q-loop/lid; other site 208963009836 ABC transporter signature motif; other site 208963009837 Walker B; other site 208963009838 D-loop; other site 208963009839 H-loop/switch region; other site 208963009840 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963009841 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 208963009842 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 208963009843 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 208963009844 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 208963009845 Cl binding site [ion binding]; other site 208963009846 oligomer interface [polypeptide binding]; other site 208963009847 EcsC protein family; Region: EcsC; pfam12787 208963009848 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 208963009849 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963009850 acyl carrier protein; Provisional; Region: acpP; PRK00982 208963009851 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 208963009852 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963009853 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963009854 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963009855 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963009856 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 208963009857 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 208963009858 DEAD_2; Region: DEAD_2; pfam06733 208963009859 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 208963009860 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 208963009861 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 208963009862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963009863 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 208963009864 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 208963009865 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963009866 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 208963009867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963009868 dimer interface [polypeptide binding]; other site 208963009869 conserved gate region; other site 208963009870 putative PBP binding loops; other site 208963009871 ABC-ATPase subunit interface; other site 208963009872 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 208963009873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963009874 Walker A/P-loop; other site 208963009875 ATP binding site [chemical binding]; other site 208963009876 Q-loop/lid; other site 208963009877 ABC transporter signature motif; other site 208963009878 Walker B; other site 208963009879 D-loop; other site 208963009880 H-loop/switch region; other site 208963009881 TOBE domain; Region: TOBE; cl01440 208963009882 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 208963009883 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 208963009884 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963009885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009886 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 208963009887 putative effector binding pocket; other site 208963009888 dimerization interface [polypeptide binding]; other site 208963009889 Streptomycin 6-kinase [Defense mechanisms]; Region: StrB; COG3570 208963009890 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 208963009891 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 208963009892 Protein of unknown function (DUF808); Region: DUF808; pfam05661 208963009893 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 208963009894 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 208963009895 Low-spin heme binding site [chemical binding]; other site 208963009896 Putative water exit pathway; other site 208963009897 Binuclear center (active site) [active] 208963009898 Putative proton exit pathway; other site 208963009899 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 208963009900 HPP family; Region: HPP; pfam04982 208963009901 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 208963009902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963009903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009904 LysR substrate binding domain; Region: LysR_substrate; pfam03466 208963009905 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963009906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963009907 metal binding site [ion binding]; metal-binding site 208963009908 active site 208963009909 I-site; other site 208963009910 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 208963009911 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 208963009912 conserved cys residue [active] 208963009913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963009914 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963009915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 208963009916 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 208963009917 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963009918 putative substrate translocation pore; other site 208963009919 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 208963009920 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 208963009921 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 208963009922 Cytochrome c; Region: Cytochrom_C; cl11414 208963009923 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 208963009924 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 208963009925 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 208963009926 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 208963009927 substrate binding pocket [chemical binding]; other site 208963009928 dimer interface [polypeptide binding]; other site 208963009929 inhibitor binding site; inhibition site 208963009930 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 208963009931 B12 binding site [chemical binding]; other site 208963009932 cobalt ligand [ion binding]; other site 208963009933 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 208963009934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 208963009935 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 208963009936 putative deacylase active site [active] 208963009937 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 208963009938 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 208963009939 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 208963009940 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 208963009941 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 208963009942 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 208963009943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 208963009944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963009945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963009946 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 208963009947 CoenzymeA binding site [chemical binding]; other site 208963009948 subunit interaction site [polypeptide binding]; other site 208963009949 PHB binding site; other site 208963009950 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 208963009951 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963009952 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 208963009953 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 208963009954 NADP binding site [chemical binding]; other site 208963009955 dimer interface [polypeptide binding]; other site 208963009956 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 208963009957 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 208963009958 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 208963009959 tandem repeat interface [polypeptide binding]; other site 208963009960 oligomer interface [polypeptide binding]; other site 208963009961 active site residues [active] 208963009962 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 208963009963 catalytic core [active] 208963009964 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 208963009965 Phosphotransferase enzyme family; Region: APH; pfam01636 208963009966 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 208963009967 putative active site [active] 208963009968 putative substrate binding site [chemical binding]; other site 208963009969 ATP binding site [chemical binding]; other site 208963009970 short chain dehydrogenase; Provisional; Region: PRK07035 208963009971 classical (c) SDRs; Region: SDR_c; cd05233 208963009972 NAD(P) binding site [chemical binding]; other site 208963009973 active site 208963009974 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963009975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963009976 NAD(P) binding site [chemical binding]; other site 208963009977 active site 208963009978 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 208963009979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963009980 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 208963009981 dimerization interface [polypeptide binding]; other site 208963009982 substrate binding pocket [chemical binding]; other site 208963009983 hypothetical protein; Provisional; Region: PRK10621 208963009984 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 208963009985 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 208963009986 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 208963009987 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 208963009988 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 208963009989 putative NADH binding site [chemical binding]; other site 208963009990 putative active site [active] 208963009991 nudix motif; other site 208963009992 putative metal binding site [ion binding]; other site 208963009993 enoyl-CoA hydratase; Provisional; Region: PRK06142 208963009994 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 208963009995 substrate binding site [chemical binding]; other site 208963009996 oxyanion hole (OAH) forming residues; other site 208963009997 trimer interface [polypeptide binding]; other site 208963009998 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 208963009999 arginine:agmatin antiporter; Provisional; Region: PRK10644 208963010000 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 208963010001 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 208963010002 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 208963010003 homodimer interface [polypeptide binding]; other site 208963010004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963010005 catalytic residue [active] 208963010006 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 208963010007 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 208963010008 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 208963010009 active site 208963010010 catalytic site [active] 208963010011 substrate binding site [chemical binding]; other site 208963010012 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 208963010013 RNA/DNA hybrid binding site [nucleotide binding]; other site 208963010014 active site 208963010015 Methyltransferase domain; Region: Methyltransf_11; pfam08241 208963010016 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 208963010017 MltD lipid attachment motif; Region: MLTD_N; pfam06474 208963010018 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 208963010019 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 208963010020 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963010021 catalytic residue [active] 208963010022 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963010023 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963010024 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963010025 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 208963010026 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 208963010027 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 208963010028 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 208963010029 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 208963010030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963010031 dimer interface [polypeptide binding]; other site 208963010032 conserved gate region; other site 208963010033 putative PBP binding loops; other site 208963010034 ABC-ATPase subunit interface; other site 208963010035 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 208963010036 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 208963010037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963010038 dimer interface [polypeptide binding]; other site 208963010039 conserved gate region; other site 208963010040 putative PBP binding loops; other site 208963010041 ABC-ATPase subunit interface; other site 208963010042 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 208963010043 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 208963010044 Walker A/P-loop; other site 208963010045 ATP binding site [chemical binding]; other site 208963010046 Q-loop/lid; other site 208963010047 ABC transporter signature motif; other site 208963010048 Walker B; other site 208963010049 D-loop; other site 208963010050 H-loop/switch region; other site 208963010051 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 208963010052 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 208963010053 Walker A/P-loop; other site 208963010054 ATP binding site [chemical binding]; other site 208963010055 Q-loop/lid; other site 208963010056 ABC transporter signature motif; other site 208963010057 Walker B; other site 208963010058 D-loop; other site 208963010059 H-loop/switch region; other site 208963010060 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 208963010061 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 208963010062 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 208963010063 NAD binding site [chemical binding]; other site 208963010064 homotetramer interface [polypeptide binding]; other site 208963010065 homodimer interface [polypeptide binding]; other site 208963010066 substrate binding site [chemical binding]; other site 208963010067 active site 208963010068 periplasmic folding chaperone; Provisional; Region: PRK10788 208963010069 SurA N-terminal domain; Region: SurA_N_3; pfam13624 208963010070 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 208963010071 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 208963010072 IHF dimer interface [polypeptide binding]; other site 208963010073 IHF - DNA interface [nucleotide binding]; other site 208963010074 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 208963010075 Found in ATP-dependent protease La (LON); Region: LON; smart00464 208963010076 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 208963010077 Walker A motif; other site 208963010078 ATP binding site [chemical binding]; other site 208963010079 Walker B motif; other site 208963010080 arginine finger; other site 208963010081 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 208963010082 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 208963010083 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 208963010084 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 208963010085 Walker A motif; other site 208963010086 ATP binding site [chemical binding]; other site 208963010087 Walker B motif; other site 208963010088 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 208963010089 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 208963010090 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 208963010091 oligomer interface [polypeptide binding]; other site 208963010092 active site residues [active] 208963010093 trigger factor; Provisional; Region: tig; PRK01490 208963010094 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 208963010095 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 208963010096 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 208963010097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963010098 active site 208963010099 phosphorylation site [posttranslational modification] 208963010100 intermolecular recognition site; other site 208963010101 dimerization interface [polypeptide binding]; other site 208963010102 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 208963010103 DNA binding site [nucleotide binding] 208963010104 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 208963010105 dimerization interface [polypeptide binding]; other site 208963010106 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 208963010107 dimer interface [polypeptide binding]; other site 208963010108 phosphorylation site [posttranslational modification] 208963010109 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963010110 ATP binding site [chemical binding]; other site 208963010111 Mg2+ binding site [ion binding]; other site 208963010112 G-X-G motif; other site 208963010113 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 208963010114 Beta-lactamase; Region: Beta-lactamase; pfam00144 208963010115 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 208963010116 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 208963010117 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 208963010118 homodimer interface [polypeptide binding]; other site 208963010119 NADP binding site [chemical binding]; other site 208963010120 substrate binding site [chemical binding]; other site 208963010121 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 208963010122 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 208963010123 active site 208963010124 HIGH motif; other site 208963010125 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 208963010126 KMSKS motif; other site 208963010127 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 208963010128 tRNA binding surface [nucleotide binding]; other site 208963010129 anticodon binding site; other site 208963010130 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 208963010131 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 208963010132 active site 208963010133 HIGH motif; other site 208963010134 nucleotide binding site [chemical binding]; other site 208963010135 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 208963010136 KMSKS motif; other site 208963010137 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 208963010138 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 208963010139 substrate binding site [chemical binding]; other site 208963010140 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 208963010141 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 208963010142 putative active site [active] 208963010143 putative metal binding site [ion binding]; other site 208963010144 SPFH domain / Band 7 family; Region: Band_7; pfam01145 208963010145 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 208963010146 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 208963010147 active site 208963010148 dinuclear metal binding site [ion binding]; other site 208963010149 dimerization interface [polypeptide binding]; other site 208963010150 universal stress protein UspE; Provisional; Region: PRK11175 208963010151 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 208963010152 Ligand Binding Site [chemical binding]; other site 208963010153 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 208963010154 Ligand Binding Site [chemical binding]; other site 208963010155 Predicted Fe-S protein [General function prediction only]; Region: COG3313 208963010156 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 208963010157 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 208963010158 substrate binding site [chemical binding]; other site 208963010159 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 208963010160 substrate binding site [chemical binding]; other site 208963010161 ligand binding site [chemical binding]; other site 208963010162 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 208963010163 NMT1-like family; Region: NMT1_2; pfam13379 208963010164 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 208963010165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963010166 active site 208963010167 phosphorylation site [posttranslational modification] 208963010168 intermolecular recognition site; other site 208963010169 dimerization interface [polypeptide binding]; other site 208963010170 ANTAR domain; Region: ANTAR; pfam03861 208963010171 Alginate lyase; Region: Alginate_lyase2; pfam08787 208963010172 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 208963010173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963010174 putative substrate translocation pore; other site 208963010175 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 208963010176 Protein kinase domain; Region: Pkinase; pfam00069 208963010177 Catalytic domain of Protein Kinases; Region: PKc; cd00180 208963010178 active site 208963010179 ATP binding site [chemical binding]; other site 208963010180 substrate binding site [chemical binding]; other site 208963010181 activation loop (A-loop); other site 208963010182 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 208963010183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963010184 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 208963010185 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 208963010186 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 208963010187 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 208963010188 [2Fe-2S] cluster binding site [ion binding]; other site 208963010189 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 208963010190 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 208963010191 [4Fe-4S] binding site [ion binding]; other site 208963010192 molybdopterin cofactor binding site; other site 208963010193 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 208963010194 molybdopterin cofactor binding site; other site 208963010195 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 208963010196 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 208963010197 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 208963010198 active site 208963010199 SAM binding site [chemical binding]; other site 208963010200 homodimer interface [polypeptide binding]; other site 208963010201 OprF membrane domain; Region: OprF; pfam05736 208963010202 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963010203 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963010204 ligand binding site [chemical binding]; other site 208963010205 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 208963010206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963010207 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 208963010208 DNA binding residues [nucleotide binding] 208963010209 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963010210 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 208963010211 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 208963010212 Cl binding site [ion binding]; other site 208963010213 oligomer interface [polypeptide binding]; other site 208963010214 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 208963010215 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963010216 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 208963010217 phosphoenolpyruvate synthase; Validated; Region: PRK06464 208963010218 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 208963010219 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 208963010220 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 208963010221 PEP synthetase regulatory protein; Provisional; Region: PRK05339 208963010222 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 208963010223 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 208963010224 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 208963010225 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 208963010226 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 208963010227 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 208963010228 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 208963010229 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 208963010230 putative active site [active] 208963010231 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 208963010232 AAA ATPase domain; Region: AAA_16; pfam13191 208963010233 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 208963010234 DNA binding residues [nucleotide binding] 208963010235 dimerization interface [polypeptide binding]; other site 208963010236 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 208963010237 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 208963010238 DNA binding residues [nucleotide binding] 208963010239 dimerization interface [polypeptide binding]; other site 208963010240 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 208963010241 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 208963010242 chorismate binding enzyme; Region: Chorismate_bind; cl10555 208963010243 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 208963010244 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 208963010245 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 208963010246 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 208963010247 Active Sites [active] 208963010248 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 208963010249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963010250 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 208963010251 substrate binding site [chemical binding]; other site 208963010252 dimerization interface [polypeptide binding]; other site 208963010253 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 208963010254 Ligand Binding Site [chemical binding]; other site 208963010255 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 208963010256 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 208963010257 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 208963010258 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 208963010259 catalytic residues [active] 208963010260 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 208963010261 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 208963010262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963010263 Coenzyme A binding pocket [chemical binding]; other site 208963010264 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 208963010265 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 208963010266 substrate binding site [chemical binding]; other site 208963010267 oxyanion hole (OAH) forming residues; other site 208963010268 trimer interface [polypeptide binding]; other site 208963010269 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 208963010270 ADP-ribose binding site [chemical binding]; other site 208963010271 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 208963010272 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 208963010273 catalytic triad [active] 208963010274 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 208963010275 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 208963010276 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 208963010277 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963010278 active site 208963010279 catalytic tetrad [active] 208963010280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963010281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963010282 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 208963010283 putative effector binding pocket; other site 208963010284 putative dimerization interface [polypeptide binding]; other site 208963010285 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 208963010286 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 208963010287 substrate binding site [chemical binding]; other site 208963010288 oxyanion hole (OAH) forming residues; other site 208963010289 trimer interface [polypeptide binding]; other site 208963010290 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 208963010291 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963010292 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 208963010293 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 208963010294 dimer interface [polypeptide binding]; other site 208963010295 active site 208963010296 Predicted permeases [General function prediction only]; Region: COG0679 208963010297 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963010298 Cytochrome c; Region: Cytochrom_C; pfam00034 208963010299 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 208963010300 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 208963010301 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 208963010302 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 208963010303 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 208963010304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 208963010305 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 208963010306 Uncharacterized conserved protein [Function unknown]; Region: COG2308 208963010307 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 208963010308 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 208963010309 catalytic triad [active] 208963010310 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 208963010311 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 208963010312 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 208963010313 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 208963010314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963010315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963010316 metal binding site [ion binding]; metal-binding site 208963010317 active site 208963010318 I-site; other site 208963010319 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 208963010320 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 208963010321 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 208963010322 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 208963010323 Switch II region; other site 208963010324 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 208963010325 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 208963010326 Flagellar assembly protein FliH; Region: FliH; pfam02108 208963010327 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 208963010328 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 208963010329 type III secretion apparatus protein, YscI/HrpB, C-terminal domain; Region: yscI_hrpB_dom; TIGR02497 208963010330 YopR Core; Region: YopR_core; cl07585 208963010331 Bacterial type II secretion system chaperone protein (type_III_yscG); Region: Type_III_YscG; pfam09477 208963010332 Type III secretion needle MxiH like; Region: MxiH; cl09641 208963010333 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 208963010334 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 208963010335 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 208963010336 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963010337 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963010338 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963010339 Tir chaperone protein (CesT) family; Region: CesT; cl08444 208963010340 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 208963010341 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963010342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963010343 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963010344 type III secretion system chaperone YscW; Region: YscW; TIGR02567 208963010345 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 208963010346 YopD protein; Region: YopD; pfam05844 208963010347 Uncharacterized conserved protein [Function unknown]; Region: COG5613 208963010348 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 208963010349 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 208963010350 binding surface 208963010351 TPR motif; other site 208963010352 V antigen (LcrV) protein; Region: LcrV; pfam04792 208963010353 LcrG protein; Region: LcrG; cl06311 208963010354 type III secretion system regulator LcrR; Region: LcrR; TIGR02572 208963010355 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 208963010356 FHIPEP family; Region: FHIPEP; pfam00771 208963010357 type III secretion protein, YscX family; Region: type_III_YscX; TIGR02502 208963010358 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 208963010359 TyeA; Region: TyeA; pfam09059 208963010360 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 208963010361 type III secretion system ATPase; Provisional; Region: PRK06936 208963010362 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 208963010363 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 208963010364 Walker A motif/ATP binding site; other site 208963010365 Walker B motif; other site 208963010366 Type III secretion protein YscO; Region: YscO; pfam07321 208963010367 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 208963010368 type III secretion system protein; Validated; Region: PRK06933 208963010369 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 208963010370 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 208963010371 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 208963010372 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 208963010373 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 208963010374 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 208963010375 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 208963010376 Sulfatase; Region: Sulfatase; pfam00884 208963010377 Uncharacterized conserved protein [Function unknown]; Region: COG3391 208963010378 Strictosidine synthase; Region: Str_synth; pfam03088 208963010379 spermidine synthase; Provisional; Region: PRK00811 208963010380 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 208963010381 S-adenosylmethionine binding site [chemical binding]; other site 208963010382 AlkA N-terminal domain; Region: AlkA_N; pfam06029 208963010383 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 208963010384 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 208963010385 minor groove reading motif; other site 208963010386 helix-hairpin-helix signature motif; other site 208963010387 substrate binding pocket [chemical binding]; other site 208963010388 active site 208963010389 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 208963010390 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 208963010391 Cupin domain; Region: Cupin_2; cl17218 208963010392 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 208963010393 intersubunit interface [polypeptide binding]; other site 208963010394 active site 208963010395 Zn2+ binding site [ion binding]; other site 208963010396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963010397 putative substrate translocation pore; other site 208963010398 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 208963010399 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 208963010400 Tetramer interface [polypeptide binding]; other site 208963010401 active site 208963010402 FMN-binding site [chemical binding]; other site 208963010403 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 208963010404 HemK family putative methylases; Region: hemK_fam; TIGR00536 208963010405 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 208963010406 S-adenosylmethionine binding site [chemical binding]; other site 208963010407 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 208963010408 Isochorismatase family; Region: Isochorismatase; pfam00857 208963010409 catalytic triad [active] 208963010410 conserved cis-peptide bond; other site 208963010411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 208963010412 Smr domain; Region: Smr; pfam01713 208963010413 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 208963010414 homodecamer interface [polypeptide binding]; other site 208963010415 GTP cyclohydrolase I; Provisional; Region: PLN03044 208963010416 active site 208963010417 putative catalytic site residues [active] 208963010418 zinc binding site [ion binding]; other site 208963010419 GTP-CH-I/GFRP interaction surface; other site 208963010420 Hemerythrin; Region: Hemerythrin; cd12107 208963010421 Fe binding site [ion binding]; other site 208963010422 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 208963010423 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963010424 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 208963010425 Catalytic domain of Protein Kinases; Region: PKc; cd00180 208963010426 active site 208963010427 ATP binding site [chemical binding]; other site 208963010428 substrate binding site [chemical binding]; other site 208963010429 activation loop (A-loop); other site 208963010430 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 208963010431 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 208963010432 Protein phosphatase 2C; Region: PP2C; pfam00481 208963010433 active site 208963010434 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 208963010435 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 208963010436 G1 box; other site 208963010437 GTP/Mg2+ binding site [chemical binding]; other site 208963010438 G2 box; other site 208963010439 Switch I region; other site 208963010440 G3 box; other site 208963010441 Switch II region; other site 208963010442 G4 box; other site 208963010443 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 208963010444 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 208963010445 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 208963010446 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 208963010447 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 208963010448 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 208963010449 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 208963010450 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 208963010451 phosphopeptide binding site; other site 208963010452 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 208963010453 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 208963010454 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 208963010455 Walker A motif; other site 208963010456 ATP binding site [chemical binding]; other site 208963010457 Walker B motif; other site 208963010458 arginine finger; other site 208963010459 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963010460 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 208963010461 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 208963010462 Walker A motif; other site 208963010463 ATP binding site [chemical binding]; other site 208963010464 Walker B motif; other site 208963010465 arginine finger; other site 208963010466 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 208963010467 Walker A motif; other site 208963010468 ATP binding site [chemical binding]; other site 208963010469 Walker B motif; other site 208963010470 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 208963010471 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 208963010472 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 208963010473 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 208963010474 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 208963010475 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 208963010476 Protein of unknown function (DUF877); Region: DUF877; pfam05943 208963010477 Protein of unknown function (DUF770); Region: DUF770; pfam05591 208963010478 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 208963010479 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 208963010480 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 208963010481 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 208963010482 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963010483 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963010484 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963010485 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 208963010486 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 208963010487 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 208963010488 RHS Repeat; Region: RHS_repeat; pfam05593 208963010489 RHS Repeat; Region: RHS_repeat; pfam05593 208963010490 RHS Repeat; Region: RHS_repeat; pfam05593 208963010491 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 208963010492 RHS Repeat; Region: RHS_repeat; pfam05593 208963010493 RHS Repeat; Region: RHS_repeat; pfam05593 208963010494 RHS Repeat; Region: RHS_repeat; pfam05593 208963010495 RHS Repeat; Region: RHS_repeat; pfam05593 208963010496 RHS protein; Region: RHS; pfam03527 208963010497 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 208963010498 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963010499 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 208963010500 putative C-terminal domain interface [polypeptide binding]; other site 208963010501 putative GSH binding site (G-site) [chemical binding]; other site 208963010502 putative dimer interface [polypeptide binding]; other site 208963010503 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 208963010504 N-terminal domain interface [polypeptide binding]; other site 208963010505 dimer interface [polypeptide binding]; other site 208963010506 substrate binding pocket (H-site) [chemical binding]; other site 208963010507 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 208963010508 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 208963010509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963010510 homodimer interface [polypeptide binding]; other site 208963010511 catalytic residue [active] 208963010512 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 208963010513 MarR family; Region: MarR_2; pfam12802 208963010514 benzoate transporter; Region: benE; TIGR00843 208963010515 Benzoate membrane transport protein; Region: BenE; pfam03594 208963010516 bile acid transporter; Region: bass; TIGR00841 208963010517 Sodium Bile acid symporter family; Region: SBF; cl17470 208963010518 short chain dehydrogenase; Provisional; Region: PRK06172 208963010519 classical (c) SDRs; Region: SDR_c; cd05233 208963010520 NAD(P) binding site [chemical binding]; other site 208963010521 active site 208963010522 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 208963010523 Prostaglandin dehydrogenases; Region: PGDH; cd05288 208963010524 NAD(P) binding site [chemical binding]; other site 208963010525 substrate binding site [chemical binding]; other site 208963010526 dimer interface [polypeptide binding]; other site 208963010527 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 208963010528 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 208963010529 Sulfate transporter family; Region: Sulfate_transp; pfam00916 208963010530 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 208963010531 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 208963010532 dimerization interface [polypeptide binding]; other site 208963010533 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963010534 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963010535 dimer interface [polypeptide binding]; other site 208963010536 putative CheW interface [polypeptide binding]; other site 208963010537 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 208963010538 Uncharacterized conserved protein [Function unknown]; Region: COG3791 208963010539 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 208963010540 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 208963010541 active site residue [active] 208963010542 selenophosphate synthetase; Provisional; Region: PRK00943 208963010543 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 208963010544 dimerization interface [polypeptide binding]; other site 208963010545 putative ATP binding site [chemical binding]; other site 208963010546 hypothetical protein; Provisional; Region: PRK10279 208963010547 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 208963010548 active site 208963010549 nucleophile elbow; other site 208963010550 glutaminase; Provisional; Region: PRK00971 208963010551 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 208963010552 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 208963010553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963010554 active site 208963010555 phosphorylation site [posttranslational modification] 208963010556 intermolecular recognition site; other site 208963010557 dimerization interface [polypeptide binding]; other site 208963010558 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 208963010559 DNA binding site [nucleotide binding] 208963010560 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 208963010561 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 208963010562 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 208963010563 Ligand Binding Site [chemical binding]; other site 208963010564 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 208963010565 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 208963010566 dimer interface [polypeptide binding]; other site 208963010567 phosphorylation site [posttranslational modification] 208963010568 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963010569 ATP binding site [chemical binding]; other site 208963010570 Mg2+ binding site [ion binding]; other site 208963010571 G-X-G motif; other site 208963010572 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 208963010573 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 208963010574 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 208963010575 Soluble P-type ATPase [General function prediction only]; Region: COG4087 208963010576 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 208963010577 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963010578 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963010579 active site 208963010580 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 208963010581 Transcriptional regulator [Transcription]; Region: IclR; COG1414 208963010582 Bacterial transcriptional regulator; Region: IclR; pfam01614 208963010583 enoyl-CoA hydratase; Provisional; Region: PRK08138 208963010584 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 208963010585 substrate binding site [chemical binding]; other site 208963010586 oxyanion hole (OAH) forming residues; other site 208963010587 trimer interface [polypeptide binding]; other site 208963010588 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 208963010589 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 208963010590 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963010591 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963010592 Transcriptional regulators [Transcription]; Region: FadR; COG2186 208963010593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963010594 DNA-binding site [nucleotide binding]; DNA binding site 208963010595 FCD domain; Region: FCD; pfam07729 208963010596 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 208963010597 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963010598 putative substrate translocation pore; other site 208963010599 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 208963010600 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 208963010601 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 208963010602 C-terminal domain interface [polypeptide binding]; other site 208963010603 GSH binding site (G-site) [chemical binding]; other site 208963010604 dimer interface [polypeptide binding]; other site 208963010605 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 208963010606 N-terminal domain interface [polypeptide binding]; other site 208963010607 dimer interface [polypeptide binding]; other site 208963010608 substrate binding pocket (H-site) [chemical binding]; other site 208963010609 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963010610 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963010611 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 208963010612 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963010613 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963010614 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963010615 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963010616 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 208963010617 CoenzymeA binding site [chemical binding]; other site 208963010618 subunit interaction site [polypeptide binding]; other site 208963010619 PHB binding site; other site 208963010620 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 208963010621 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 208963010622 acyl-activating enzyme (AAE) consensus motif; other site 208963010623 putative AMP binding site [chemical binding]; other site 208963010624 putative active site [active] 208963010625 putative CoA binding site [chemical binding]; other site 208963010626 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 208963010627 catalytic core [active] 208963010628 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 208963010629 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 208963010630 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 208963010631 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 208963010632 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963010633 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 208963010634 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 208963010635 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 208963010636 dimerization interface [polypeptide binding]; other site 208963010637 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 208963010638 dimer interface [polypeptide binding]; other site 208963010639 phosphorylation site [posttranslational modification] 208963010640 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963010641 ATP binding site [chemical binding]; other site 208963010642 Mg2+ binding site [ion binding]; other site 208963010643 G-X-G motif; other site 208963010644 Response regulator receiver domain; Region: Response_reg; pfam00072 208963010645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963010646 active site 208963010647 phosphorylation site [posttranslational modification] 208963010648 intermolecular recognition site; other site 208963010649 dimerization interface [polypeptide binding]; other site 208963010650 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 208963010651 active site 1 [active] 208963010652 dimer interface [polypeptide binding]; other site 208963010653 active site 2 [active] 208963010654 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 208963010655 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 208963010656 dimer interface [polypeptide binding]; other site 208963010657 active site 208963010658 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 208963010659 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 208963010660 dimerization interface [polypeptide binding]; other site 208963010661 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963010662 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963010663 dimer interface [polypeptide binding]; other site 208963010664 putative CheW interface [polypeptide binding]; other site 208963010665 Predicted transcriptional regulators [Transcription]; Region: COG1733 208963010666 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 208963010667 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 208963010668 Amidohydrolase; Region: Amidohydro_2; pfam04909 208963010669 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 208963010670 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 208963010671 membrane-bound complex binding site; other site 208963010672 hinge residues; other site 208963010673 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 208963010674 MarR family; Region: MarR; pfam01047 208963010675 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 208963010676 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 208963010677 catalytic loop [active] 208963010678 iron binding site [ion binding]; other site 208963010679 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 208963010680 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 208963010681 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963010682 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 208963010683 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963010684 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963010685 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963010686 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963010687 Cupin domain; Region: Cupin_2; cl17218 208963010688 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963010689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963010690 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963010691 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 208963010692 oligomerization interface [polypeptide binding]; other site 208963010693 active site 208963010694 metal binding site [ion binding]; metal-binding site 208963010695 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 208963010696 heat shock protein 90; Provisional; Region: PRK05218 208963010697 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963010698 ATP binding site [chemical binding]; other site 208963010699 Mg2+ binding site [ion binding]; other site 208963010700 G-X-G motif; other site 208963010701 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 208963010702 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 208963010703 CoenzymeA binding site [chemical binding]; other site 208963010704 subunit interaction site [polypeptide binding]; other site 208963010705 PHB binding site; other site 208963010706 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 208963010707 CoenzymeA binding site [chemical binding]; other site 208963010708 subunit interaction site [polypeptide binding]; other site 208963010709 PHB binding site; other site 208963010710 Predicted membrane protein [Function unknown]; Region: COG3821 208963010711 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 208963010712 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 208963010713 CoA binding domain; Region: CoA_binding; pfam02629 208963010714 CoA-ligase; Region: Ligase_CoA; pfam00549 208963010715 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 208963010716 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 208963010717 CoA-ligase; Region: Ligase_CoA; pfam00549 208963010718 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 208963010719 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 208963010720 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963010721 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 208963010722 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 208963010723 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 208963010724 E3 interaction surface; other site 208963010725 lipoyl attachment site [posttranslational modification]; other site 208963010726 e3 binding domain; Region: E3_binding; pfam02817 208963010727 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 208963010728 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 208963010729 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 208963010730 TPP-binding site [chemical binding]; other site 208963010731 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 208963010732 PYR/PP interface [polypeptide binding]; other site 208963010733 dimer interface [polypeptide binding]; other site 208963010734 TPP binding site [chemical binding]; other site 208963010735 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 208963010736 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 208963010737 L-aspartate oxidase; Provisional; Region: PRK06175 208963010738 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 208963010739 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 208963010740 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 208963010741 SdhC subunit interface [polypeptide binding]; other site 208963010742 proximal heme binding site [chemical binding]; other site 208963010743 cardiolipin binding site; other site 208963010744 Iron-sulfur protein interface; other site 208963010745 proximal quinone binding site [chemical binding]; other site 208963010746 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 208963010747 Iron-sulfur protein interface; other site 208963010748 proximal quinone binding site [chemical binding]; other site 208963010749 SdhD (CybS) interface [polypeptide binding]; other site 208963010750 proximal heme binding site [chemical binding]; other site 208963010751 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 208963010752 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 208963010753 dimer interface [polypeptide binding]; other site 208963010754 active site 208963010755 citrylCoA binding site [chemical binding]; other site 208963010756 NADH binding [chemical binding]; other site 208963010757 cationic pore residues; other site 208963010758 oxalacetate/citrate binding site [chemical binding]; other site 208963010759 coenzyme A binding site [chemical binding]; other site 208963010760 catalytic triad [active] 208963010761 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 208963010762 putative lipid binding site [chemical binding]; other site 208963010763 Flagellin N-methylase; Region: FliB; pfam03692 208963010764 Protein of unknown function, DUF486; Region: DUF486; pfam04342 208963010765 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 208963010766 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 208963010767 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 208963010768 active site 208963010769 catalytic site [active] 208963010770 substrate binding site [chemical binding]; other site 208963010771 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 208963010772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 208963010773 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 208963010774 ATP-NAD kinase; Region: NAD_kinase; pfam01513 208963010775 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 208963010776 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963010777 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 208963010778 dimerization interface [polypeptide binding]; other site 208963010779 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 208963010780 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963010781 putative substrate translocation pore; other site 208963010782 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963010783 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 208963010784 homotrimer interaction site [polypeptide binding]; other site 208963010785 putative active site [active] 208963010786 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963010787 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963010788 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 208963010789 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963010790 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963010791 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963010792 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 208963010793 CPxP motif; other site 208963010794 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 208963010795 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 208963010796 aconitate hydratase; Validated; Region: PRK09277 208963010797 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 208963010798 substrate binding site [chemical binding]; other site 208963010799 ligand binding site [chemical binding]; other site 208963010800 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 208963010801 substrate binding site [chemical binding]; other site 208963010802 PAS domain; Region: PAS_9; pfam13426 208963010803 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 208963010804 putative active site [active] 208963010805 heme pocket [chemical binding]; other site 208963010806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963010807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963010808 dimer interface [polypeptide binding]; other site 208963010809 putative CheW interface [polypeptide binding]; other site 208963010810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963010811 NAD(P) binding site [chemical binding]; other site 208963010812 active site 208963010813 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 208963010814 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 208963010815 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 208963010816 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 208963010817 Low-spin heme binding site [chemical binding]; other site 208963010818 Putative water exit pathway; other site 208963010819 Binuclear center (active site) [active] 208963010820 Putative proton exit pathway; other site 208963010821 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 208963010822 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 208963010823 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 208963010824 Cytochrome c; Region: Cytochrom_C; pfam00034 208963010825 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963010826 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 208963010827 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 208963010828 Low-spin heme binding site [chemical binding]; other site 208963010829 Putative water exit pathway; other site 208963010830 Binuclear center (active site) [active] 208963010831 Putative proton exit pathway; other site 208963010832 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 208963010833 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 208963010834 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 208963010835 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 208963010836 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 208963010837 Cytochrome c; Region: Cytochrom_C; cl11414 208963010838 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 208963010839 4Fe-4S binding domain; Region: Fer4_5; pfam12801 208963010840 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 208963010841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 208963010842 FixH; Region: FixH; pfam05751 208963010843 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 208963010844 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 208963010845 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 208963010846 metal-binding site [ion binding] 208963010847 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 208963010848 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 208963010849 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 208963010850 Uncharacterized conserved protein [Function unknown]; Region: COG2836 208963010851 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 208963010852 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 208963010853 FeS/SAM binding site; other site 208963010854 HemN C-terminal domain; Region: HemN_C; pfam06969 208963010855 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 208963010856 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 208963010857 ligand binding site [chemical binding]; other site 208963010858 flexible hinge region; other site 208963010859 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 208963010860 putative switch regulator; other site 208963010861 non-specific DNA interactions [nucleotide binding]; other site 208963010862 DNA binding site [nucleotide binding] 208963010863 sequence specific DNA binding site [nucleotide binding]; other site 208963010864 putative cAMP binding site [chemical binding]; other site 208963010865 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963010866 active site 208963010867 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 208963010868 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 208963010869 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 208963010870 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 208963010871 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 208963010872 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963010873 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 208963010874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 208963010875 short chain dehydrogenase; Provisional; Region: PRK06181 208963010876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963010877 NAD(P) binding site [chemical binding]; other site 208963010878 active site 208963010879 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 208963010880 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963010881 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963010882 active site 208963010883 recombination protein RecR; Reviewed; Region: recR; PRK00076 208963010884 RecR protein; Region: RecR; pfam02132 208963010885 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 208963010886 putative active site [active] 208963010887 putative metal-binding site [ion binding]; other site 208963010888 tetramer interface [polypeptide binding]; other site 208963010889 hypothetical protein; Validated; Region: PRK00153 208963010890 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 208963010891 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 208963010892 Walker A motif; other site 208963010893 ATP binding site [chemical binding]; other site 208963010894 Walker B motif; other site 208963010895 arginine finger; other site 208963010896 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 208963010897 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963010898 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 208963010899 substrate binding pocket [chemical binding]; other site 208963010900 membrane-bound complex binding site; other site 208963010901 hinge residues; other site 208963010902 Ligase N family; Region: LIGANc; smart00532 208963010903 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 208963010904 nucleotide binding pocket [chemical binding]; other site 208963010905 K-X-D-G motif; other site 208963010906 catalytic site [active] 208963010907 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 208963010908 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 208963010909 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 208963010910 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 208963010911 Dimer interface [polypeptide binding]; other site 208963010912 BRCT sequence motif; other site 208963010913 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 208963010914 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 208963010915 FtsZ protein binding site [polypeptide binding]; other site 208963010916 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 208963010917 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 208963010918 Walker A/P-loop; other site 208963010919 ATP binding site [chemical binding]; other site 208963010920 Q-loop/lid; other site 208963010921 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 208963010922 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 208963010923 ABC transporter signature motif; other site 208963010924 Walker B; other site 208963010925 D-loop; other site 208963010926 H-loop/switch region; other site 208963010927 Transcriptional regulators [Transcription]; Region: GntR; COG1802 208963010928 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963010929 DNA-binding site [nucleotide binding]; DNA binding site 208963010930 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 208963010931 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 208963010932 Fatty acid desaturase; Region: FA_desaturase; pfam00487 208963010933 Di-iron ligands [ion binding]; other site 208963010934 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 208963010935 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 208963010936 catalytic loop [active] 208963010937 iron binding site [ion binding]; other site 208963010938 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 208963010939 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 208963010940 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 208963010941 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 208963010942 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963010943 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 208963010944 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 208963010945 XdhC Rossmann domain; Region: XdhC_C; pfam13478 208963010946 guanine deaminase; Provisional; Region: PRK09228 208963010947 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 208963010948 active site 208963010949 Transcriptional regulators [Transcription]; Region: GntR; COG1802 208963010950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963010951 DNA-binding site [nucleotide binding]; DNA binding site 208963010952 FCD domain; Region: FCD; pfam07729 208963010953 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 208963010954 Sulfate transporter family; Region: Sulfate_transp; pfam00916 208963010955 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 208963010956 active site 208963010957 homotetramer interface [polypeptide binding]; other site 208963010958 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 208963010959 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 208963010960 active site 208963010961 catalytic site [active] 208963010962 tetramer interface [polypeptide binding]; other site 208963010963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 208963010964 Allantoicase [Nucleotide transport and metabolism]; Region: Alc; COG4266 208963010965 Allantoicase repeat; Region: Allantoicase; pfam03561 208963010966 Allantoicase repeat; Region: Allantoicase; pfam03561 208963010967 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 208963010968 ureidoglycolate hydrolase; Provisional; Region: PRK03606 208963010969 Predicted membrane protein [Function unknown]; Region: COG3748 208963010970 Protein of unknown function (DUF989); Region: DUF989; pfam06181 208963010971 Cytochrome c; Region: Cytochrom_C; pfam00034 208963010972 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 208963010973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 208963010974 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963010975 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963010976 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 208963010977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 208963010978 PGAP1-like protein; Region: PGAP1; pfam07819 208963010979 PAAR motif; Region: PAAR_motif; pfam05488 208963010980 xanthine permease; Region: pbuX; TIGR03173 208963010981 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 208963010982 active site 208963010983 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 208963010984 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 208963010985 FeS/SAM binding site; other site 208963010986 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 208963010987 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 208963010988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963010989 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 208963010990 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 208963010991 glyoxylate carboligase; Provisional; Region: PRK11269 208963010992 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 208963010993 PYR/PP interface [polypeptide binding]; other site 208963010994 dimer interface [polypeptide binding]; other site 208963010995 TPP binding site [chemical binding]; other site 208963010996 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963010997 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 208963010998 TPP-binding site [chemical binding]; other site 208963010999 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 208963011000 tartronate semialdehyde reductase; Provisional; Region: PRK15059 208963011001 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 208963011002 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 208963011003 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 208963011004 MOFRL family; Region: MOFRL; pfam05161 208963011005 pyruvate kinase; Provisional; Region: PRK06247 208963011006 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 208963011007 domain interfaces; other site 208963011008 active site 208963011009 Urea transporter; Region: UT; cl01829 208963011010 Ion transport protein; Region: Ion_trans; pfam00520 208963011011 Ion channel; Region: Ion_trans_2; pfam07885 208963011012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 208963011013 conserved hypothetical protein; Region: TIGR02231 208963011014 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 208963011015 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 208963011016 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 208963011017 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 208963011018 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 208963011019 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 208963011020 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 208963011021 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 208963011022 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 208963011023 Predicted dehydrogenase [General function prediction only]; Region: COG0579 208963011024 hydroxyglutarate oxidase; Provisional; Region: PRK11728 208963011025 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 208963011026 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 208963011027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963011028 Proteobacterial glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK_like_proteobact; cd07794 208963011029 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 208963011030 N- and C-terminal domain interface [polypeptide binding]; other site 208963011031 active site 208963011032 MgATP binding site [chemical binding]; other site 208963011033 catalytic site [active] 208963011034 metal binding site [ion binding]; metal-binding site 208963011035 putative homotetramer interface [polypeptide binding]; other site 208963011036 putative homodimer interface [polypeptide binding]; other site 208963011037 putative glycerol binding site [chemical binding]; other site 208963011038 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 208963011039 homodimer interface [polypeptide binding]; other site 208963011040 homotetramer interface [polypeptide binding]; other site 208963011041 active site pocket [active] 208963011042 cleavage site 208963011043 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 208963011044 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963011045 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 208963011046 DNA binding residues [nucleotide binding] 208963011047 dimerization interface [polypeptide binding]; other site 208963011048 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 208963011049 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 208963011050 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 208963011051 binding surface 208963011052 TPR motif; other site 208963011053 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 208963011054 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 208963011055 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 208963011056 catalytic residues [active] 208963011057 central insert; other site 208963011058 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 208963011059 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 208963011060 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 208963011061 heme exporter protein CcmC; Region: ccmC; TIGR01191 208963011062 heme exporter protein CcmB; Region: ccmB; TIGR01190 208963011063 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 208963011064 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 208963011065 Walker A/P-loop; other site 208963011066 ATP binding site [chemical binding]; other site 208963011067 Q-loop/lid; other site 208963011068 ABC transporter signature motif; other site 208963011069 Walker B; other site 208963011070 D-loop; other site 208963011071 H-loop/switch region; other site 208963011072 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 208963011073 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 208963011074 short chain dehydrogenase; Provisional; Region: PRK12937 208963011075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963011076 NAD(P) binding site [chemical binding]; other site 208963011077 active site 208963011078 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 208963011079 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 208963011080 Predicted transcriptional regulator [Transcription]; Region: COG2378 208963011081 HTH domain; Region: HTH_11; pfam08279 208963011082 WYL domain; Region: WYL; pfam13280 208963011083 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 208963011084 C-terminal domain interface [polypeptide binding]; other site 208963011085 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963011086 GSH binding site (G-site) [chemical binding]; other site 208963011087 dimer interface [polypeptide binding]; other site 208963011088 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 208963011089 N-terminal domain interface [polypeptide binding]; other site 208963011090 dimer interface [polypeptide binding]; other site 208963011091 substrate binding pocket (H-site) [chemical binding]; other site 208963011092 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 208963011093 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 208963011094 putative CheA interaction surface; other site 208963011095 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 208963011096 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 208963011097 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 208963011098 P-loop; other site 208963011099 Magnesium ion binding site [ion binding]; other site 208963011100 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 208963011101 Magnesium ion binding site [ion binding]; other site 208963011102 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 208963011103 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 208963011104 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963011105 ligand binding site [chemical binding]; other site 208963011106 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 208963011107 flagellar motor protein; Reviewed; Region: motC; PRK09109 208963011108 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 208963011109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963011110 active site 208963011111 phosphorylation site [posttranslational modification] 208963011112 intermolecular recognition site; other site 208963011113 dimerization interface [polypeptide binding]; other site 208963011114 CheB methylesterase; Region: CheB_methylest; pfam01339 208963011115 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 208963011116 putative binding surface; other site 208963011117 active site 208963011118 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 208963011119 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 208963011120 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963011121 ATP binding site [chemical binding]; other site 208963011122 Mg2+ binding site [ion binding]; other site 208963011123 G-X-G motif; other site 208963011124 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 208963011125 Chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheZ; COG3143 208963011126 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 208963011127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963011128 active site 208963011129 phosphorylation site [posttranslational modification] 208963011130 intermolecular recognition site; other site 208963011131 dimerization interface [polypeptide binding]; other site 208963011132 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 208963011133 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963011134 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 208963011135 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 208963011136 DNA binding residues [nucleotide binding] 208963011137 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 208963011138 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 208963011139 P-loop; other site 208963011140 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 208963011141 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 208963011142 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 208963011143 FHIPEP family; Region: FHIPEP; pfam00771 208963011144 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 208963011145 Repair protein; Region: Repair_PSII; pfam04536 208963011146 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 208963011147 Repair protein; Region: Repair_PSII; pfam04536 208963011148 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 208963011149 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 208963011150 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 208963011151 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 208963011152 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 208963011153 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 208963011154 flagellar motor switch protein; Validated; Region: fliN; PRK05698 208963011155 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 208963011156 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 208963011157 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 208963011158 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 208963011159 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 208963011160 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 208963011161 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 208963011162 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 208963011163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 208963011164 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 208963011165 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 208963011166 dimer interface [polypeptide binding]; other site 208963011167 phosphorylation site [posttranslational modification] 208963011168 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963011169 ATP binding site [chemical binding]; other site 208963011170 Mg2+ binding site [ion binding]; other site 208963011171 G-X-G motif; other site 208963011172 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 208963011173 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963011174 active site 208963011175 phosphorylation site [posttranslational modification] 208963011176 intermolecular recognition site; other site 208963011177 dimerization interface [polypeptide binding]; other site 208963011178 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 208963011179 DNA binding site [nucleotide binding] 208963011180 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 208963011181 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963011182 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963011183 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963011184 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 208963011185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963011186 metal binding site [ion binding]; metal-binding site 208963011187 active site 208963011188 I-site; other site 208963011189 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 208963011190 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 208963011191 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 208963011192 Autoinducer binding domain; Region: Autoind_bind; pfam03472 208963011193 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 208963011194 DNA binding residues [nucleotide binding] 208963011195 dimerization interface [polypeptide binding]; other site 208963011196 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 208963011197 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 208963011198 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 208963011199 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 208963011200 Soluble P-type ATPase [General function prediction only]; Region: COG4087 208963011201 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 208963011202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 208963011203 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 208963011204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963011205 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963011206 Walker A/P-loop; other site 208963011207 Walker A/P-loop; other site 208963011208 ATP binding site [chemical binding]; other site 208963011209 ATP binding site [chemical binding]; other site 208963011210 Q-loop/lid; other site 208963011211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963011212 Q-loop/lid; other site 208963011213 ABC transporter signature motif; other site 208963011214 ABC transporter signature motif; other site 208963011215 Walker B; other site 208963011216 Walker B; other site 208963011217 D-loop; other site 208963011218 H-loop/switch region; other site 208963011219 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963011220 DTW domain; Region: DTW; cl01221 208963011221 PAS domain; Region: PAS_9; pfam13426 208963011222 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 208963011223 putative active site [active] 208963011224 heme pocket [chemical binding]; other site 208963011225 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 208963011226 PAS domain; Region: PAS_9; pfam13426 208963011227 putative active site [active] 208963011228 heme pocket [chemical binding]; other site 208963011229 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963011230 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963011231 dimer interface [polypeptide binding]; other site 208963011232 putative CheW interface [polypeptide binding]; other site 208963011233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963011234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011235 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 208963011236 dimerization interface [polypeptide binding]; other site 208963011237 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 208963011238 agmatinase; Region: agmatinase; TIGR01230 208963011239 oligomer interface [polypeptide binding]; other site 208963011240 putative active site [active] 208963011241 Mn binding site [ion binding]; other site 208963011242 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 208963011243 SnoaL-like domain; Region: SnoaL_3; pfam13474 208963011244 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 208963011245 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 208963011246 Na binding site [ion binding]; other site 208963011247 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 208963011248 Na binding site [ion binding]; other site 208963011249 hypothetical protein; Provisional; Region: PRK07524 208963011250 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 208963011251 PYR/PP interface [polypeptide binding]; other site 208963011252 dimer interface [polypeptide binding]; other site 208963011253 TPP binding site [chemical binding]; other site 208963011254 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963011255 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 208963011256 TPP-binding site [chemical binding]; other site 208963011257 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 208963011258 FAD binding domain; Region: FAD_binding_4; pfam01565 208963011259 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 208963011260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963011261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011262 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 208963011263 putative dimerization interface [polypeptide binding]; other site 208963011264 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 208963011265 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 208963011266 EamA-like transporter family; Region: EamA; pfam00892 208963011267 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 208963011268 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 208963011269 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 208963011270 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 208963011271 active site 208963011272 Zn binding site [ion binding]; other site 208963011273 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 208963011274 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 208963011275 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963011276 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 208963011277 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 208963011278 S-adenosylmethionine binding site [chemical binding]; other site 208963011279 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 208963011280 active site 208963011281 NTP binding site [chemical binding]; other site 208963011282 metal binding triad [ion binding]; metal-binding site 208963011283 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 208963011284 Family description; Region: UvrD_C_2; pfam13538 208963011285 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963011286 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 208963011287 Methyltransferase domain; Region: Methyltransf_24; pfam13578 208963011288 Predicted ester cyclase [General function prediction only]; Region: COG5485 208963011289 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 208963011290 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963011291 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963011292 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 208963011293 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 208963011294 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 208963011295 carboxyltransferase (CT) interaction site; other site 208963011296 biotinylation site [posttranslational modification]; other site 208963011297 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 208963011298 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 208963011299 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963011300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011301 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 208963011302 substrate binding pocket [chemical binding]; other site 208963011303 dimerization interface [polypeptide binding]; other site 208963011304 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963011305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963011306 active site 208963011307 phosphorylation site [posttranslational modification] 208963011308 intermolecular recognition site; other site 208963011309 dimerization interface [polypeptide binding]; other site 208963011310 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 208963011311 DNA binding residues [nucleotide binding] 208963011312 dimerization interface [polypeptide binding]; other site 208963011313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963011314 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 208963011315 dimer interface [polypeptide binding]; other site 208963011316 phosphorylation site [posttranslational modification] 208963011317 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 208963011318 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963011319 ATP binding site [chemical binding]; other site 208963011320 Mg2+ binding site [ion binding]; other site 208963011321 G-X-G motif; other site 208963011322 Response regulator receiver domain; Region: Response_reg; pfam00072 208963011323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963011324 active site 208963011325 phosphorylation site [posttranslational modification] 208963011326 intermolecular recognition site; other site 208963011327 dimerization interface [polypeptide binding]; other site 208963011328 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 208963011329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963011330 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963011331 short chain dehydrogenase; Provisional; Region: PRK06180 208963011332 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 208963011333 NADP binding site [chemical binding]; other site 208963011334 active site 208963011335 steroid binding site; other site 208963011336 putative acetyltransferase YhhY; Provisional; Region: PRK10140 208963011337 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963011338 Coenzyme A binding pocket [chemical binding]; other site 208963011339 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 208963011340 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 208963011341 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 208963011342 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 208963011343 ligand binding site [chemical binding]; other site 208963011344 NAD binding site [chemical binding]; other site 208963011345 catalytic site [active] 208963011346 homodimer interface [polypeptide binding]; other site 208963011347 Predicted transcriptional regulators [Transcription]; Region: COG1733 208963011348 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 208963011349 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 208963011350 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 208963011351 dimer interface [polypeptide binding]; other site 208963011352 active site 208963011353 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 208963011354 PLD-like domain; Region: PLDc_2; pfam13091 208963011355 putative active site [active] 208963011356 catalytic site [active] 208963011357 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 208963011358 putative active site [active] 208963011359 catalytic site [active] 208963011360 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 208963011361 CAS motifs; other site 208963011362 active site 208963011363 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963011364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963011365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963011366 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963011367 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963011368 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963011369 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 208963011370 short chain dehydrogenase; Provisional; Region: PRK06179 208963011371 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 208963011372 NADP binding site [chemical binding]; other site 208963011373 active site 208963011374 steroid binding site; other site 208963011375 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 208963011376 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 208963011377 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 208963011378 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963011379 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963011380 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 208963011381 N-terminal plug; other site 208963011382 ligand-binding site [chemical binding]; other site 208963011383 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963011384 FecR protein; Region: FecR; pfam04773 208963011385 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 208963011386 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 208963011387 DNA binding residues [nucleotide binding] 208963011388 multidrug efflux protein; Reviewed; Region: PRK01766 208963011389 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 208963011390 cation binding site [ion binding]; other site 208963011391 threonine and homoserine efflux system; Provisional; Region: PRK10532 208963011392 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 208963011393 non-specific DNA binding site [nucleotide binding]; other site 208963011394 salt bridge; other site 208963011395 sequence-specific DNA binding site [nucleotide binding]; other site 208963011396 Cupin domain; Region: Cupin_2; pfam07883 208963011397 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 208963011398 dimer interface [polypeptide binding]; other site 208963011399 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 208963011400 putative deacylase active site [active] 208963011401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 208963011402 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963011403 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 208963011404 dimer interface [polypeptide binding]; other site 208963011405 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 208963011406 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963011407 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 208963011408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 208963011409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 208963011410 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963011411 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 208963011412 DNA binding residues [nucleotide binding] 208963011413 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 208963011414 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 208963011415 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 208963011416 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 208963011417 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 208963011418 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963011419 short chain dehydrogenase; Provisional; Region: PRK06523 208963011420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963011421 NAD(P) binding site [chemical binding]; other site 208963011422 active site 208963011423 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 208963011424 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 208963011425 substrate binding pocket [chemical binding]; other site 208963011426 membrane-bound complex binding site; other site 208963011427 hinge residues; other site 208963011428 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963011429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963011430 dimer interface [polypeptide binding]; other site 208963011431 conserved gate region; other site 208963011432 putative PBP binding loops; other site 208963011433 ABC-ATPase subunit interface; other site 208963011434 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963011435 dimer interface [polypeptide binding]; other site 208963011436 conserved gate region; other site 208963011437 putative PBP binding loops; other site 208963011438 ABC-ATPase subunit interface; other site 208963011439 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 208963011440 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 208963011441 Walker A/P-loop; other site 208963011442 ATP binding site [chemical binding]; other site 208963011443 Q-loop/lid; other site 208963011444 ABC transporter signature motif; other site 208963011445 Walker B; other site 208963011446 D-loop; other site 208963011447 H-loop/switch region; other site 208963011448 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 208963011449 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 208963011450 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 208963011451 homodimer interface [polypeptide binding]; other site 208963011452 active site 208963011453 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 208963011454 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 208963011455 dimer interface [polypeptide binding]; other site 208963011456 phosphorylation site [posttranslational modification] 208963011457 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963011458 ATP binding site [chemical binding]; other site 208963011459 Mg2+ binding site [ion binding]; other site 208963011460 G-X-G motif; other site 208963011461 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963011462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963011463 active site 208963011464 phosphorylation site [posttranslational modification] 208963011465 intermolecular recognition site; other site 208963011466 dimerization interface [polypeptide binding]; other site 208963011467 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 208963011468 Walker A motif; other site 208963011469 ATP binding site [chemical binding]; other site 208963011470 Walker B motif; other site 208963011471 arginine finger; other site 208963011472 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963011473 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 208963011474 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963011475 FMN binding site [chemical binding]; other site 208963011476 active site 208963011477 substrate binding site [chemical binding]; other site 208963011478 catalytic residue [active] 208963011479 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 208963011480 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 208963011481 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 208963011482 Transporter associated domain; Region: CorC_HlyC; smart01091 208963011483 short chain dehydrogenase; Provisional; Region: PRK09291 208963011484 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 208963011485 NADP binding site [chemical binding]; other site 208963011486 active site 208963011487 steroid binding site; other site 208963011488 Domain of unknown function (DUF336); Region: DUF336; cl01249 208963011489 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963011490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011491 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 208963011492 putative effector binding pocket; other site 208963011493 putative dimerization interface [polypeptide binding]; other site 208963011494 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 208963011495 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 208963011496 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 208963011497 active site 208963011498 substrate binding site [chemical binding]; other site 208963011499 Mg2+ binding site [ion binding]; other site 208963011500 threonine dehydratase; Reviewed; Region: PRK09224 208963011501 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 208963011502 tetramer interface [polypeptide binding]; other site 208963011503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963011504 catalytic residue [active] 208963011505 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 208963011506 putative Ile/Val binding site [chemical binding]; other site 208963011507 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 208963011508 putative Ile/Val binding site [chemical binding]; other site 208963011509 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 208963011510 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 208963011511 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 208963011512 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 208963011513 N-terminal plug; other site 208963011514 ligand-binding site [chemical binding]; other site 208963011515 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 208963011516 UbiA prenyltransferase family; Region: UbiA; pfam01040 208963011517 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 208963011518 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 208963011519 Subunit I/III interface [polypeptide binding]; other site 208963011520 Subunit III/IV interface [polypeptide binding]; other site 208963011521 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 208963011522 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 208963011523 D-pathway; other site 208963011524 Putative ubiquinol binding site [chemical binding]; other site 208963011525 Low-spin heme (heme b) binding site [chemical binding]; other site 208963011526 Putative water exit pathway; other site 208963011527 Binuclear center (heme o3/CuB) [ion binding]; other site 208963011528 K-pathway; other site 208963011529 Putative proton exit pathway; other site 208963011530 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 208963011531 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 208963011532 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 208963011533 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 208963011534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011535 putative substrate translocation pore; other site 208963011536 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963011537 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963011538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 208963011539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011540 putative substrate translocation pore; other site 208963011541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011542 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963011543 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011544 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 208963011545 putative effector binding pocket; other site 208963011546 dimerization interface [polypeptide binding]; other site 208963011547 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 208963011548 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 208963011549 motif II; other site 208963011550 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 208963011551 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963011552 catalytic residue [active] 208963011553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011554 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 208963011555 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 208963011556 dimerization interface [polypeptide binding]; other site 208963011557 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 208963011558 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 208963011559 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 208963011560 putative active site [active] 208963011561 putative dimer interface [polypeptide binding]; other site 208963011562 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 208963011563 nucleotide binding site/active site [active] 208963011564 HIT family signature motif; other site 208963011565 catalytic residue [active] 208963011566 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 208963011567 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963011568 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 208963011569 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 208963011570 Catalytic site [active] 208963011571 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963011572 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 208963011573 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 208963011574 N-terminal plug; other site 208963011575 ligand-binding site [chemical binding]; other site 208963011576 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963011577 FecR protein; Region: FecR; pfam04773 208963011578 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 208963011579 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963011580 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 208963011581 DNA binding residues [nucleotide binding] 208963011582 hypothetical protein; Provisional; Region: PRK05170 208963011583 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 208963011584 putative metal binding site [ion binding]; other site 208963011585 putative homodimer interface [polypeptide binding]; other site 208963011586 putative homotetramer interface [polypeptide binding]; other site 208963011587 putative homodimer-homodimer interface [polypeptide binding]; other site 208963011588 putative allosteric switch controlling residues; other site 208963011589 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 208963011590 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 208963011591 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 208963011592 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 208963011593 NAD binding site [chemical binding]; other site 208963011594 ligand binding site [chemical binding]; other site 208963011595 catalytic site [active] 208963011596 YcgL domain; Region: YcgL; pfam05166 208963011597 ribonuclease D; Region: rnd; TIGR01388 208963011598 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 208963011599 catalytic site [active] 208963011600 putative active site [active] 208963011601 putative substrate binding site [chemical binding]; other site 208963011602 HRDC domain; Region: HRDC; pfam00570 208963011603 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 208963011604 Strictosidine synthase; Region: Str_synth; pfam03088 208963011605 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 208963011606 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 208963011607 active site residue [active] 208963011608 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 208963011609 active site residue [active] 208963011610 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 208963011611 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963011612 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963011613 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 208963011614 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 208963011615 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 208963011616 catalytic residues [active] 208963011617 dimer interface [polypeptide binding]; other site 208963011618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963011619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011620 Transcriptional regulators [Transcription]; Region: MarR; COG1846 208963011621 MarR family; Region: MarR_2; pfam12802 208963011622 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 208963011623 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 208963011624 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963011625 active site 208963011626 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 208963011627 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963011628 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963011629 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 208963011630 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011631 cobalamin synthase; Reviewed; Region: cobS; PRK00235 208963011632 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 208963011633 catalytic core [active] 208963011634 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 208963011635 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 208963011636 putative dimer interface [polypeptide binding]; other site 208963011637 active site pocket [active] 208963011638 putative cataytic base [active] 208963011639 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 208963011640 homotrimer interface [polypeptide binding]; other site 208963011641 Walker A motif; other site 208963011642 GTP binding site [chemical binding]; other site 208963011643 Walker B motif; other site 208963011644 cobyric acid synthase; Provisional; Region: PRK00784 208963011645 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 208963011646 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 208963011647 catalytic triad [active] 208963011648 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 208963011649 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 208963011650 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963011651 catalytic residue [active] 208963011652 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 208963011653 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 208963011654 FMN binding site [chemical binding]; other site 208963011655 dimer interface [polypeptide binding]; other site 208963011656 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 208963011657 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 208963011658 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 208963011659 catalytic triad [active] 208963011660 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 208963011661 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 208963011662 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 208963011663 homodimer interface [polypeptide binding]; other site 208963011664 Walker A motif; other site 208963011665 ATP binding site [chemical binding]; other site 208963011666 hydroxycobalamin binding site [chemical binding]; other site 208963011667 Walker B motif; other site 208963011668 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 208963011669 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 208963011670 N-terminal plug; other site 208963011671 ligand-binding site [chemical binding]; other site 208963011672 Fusaric acid resistance protein family; Region: FUSC; pfam04632 208963011673 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 208963011674 Transcriptional regulators [Transcription]; Region: GntR; COG1802 208963011675 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963011676 DNA-binding site [nucleotide binding]; DNA binding site 208963011677 FCD domain; Region: FCD; pfam07729 208963011678 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 208963011679 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 208963011680 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963011681 hydroxyglutarate oxidase; Provisional; Region: PRK11728 208963011682 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 208963011683 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 208963011684 EamA-like transporter family; Region: EamA; pfam00892 208963011685 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963011686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011687 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 208963011688 Helix-turn-helix domain; Region: HTH_31; pfam13560 208963011689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011690 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 208963011691 putative substrate translocation pore; other site 208963011692 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 208963011693 PAS domain; Region: PAS_9; pfam13426 208963011694 putative active site [active] 208963011695 heme pocket [chemical binding]; other site 208963011696 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963011697 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963011698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963011699 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963011700 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 208963011701 substrate binding pocket [chemical binding]; other site 208963011702 membrane-bound complex binding site; other site 208963011703 hinge residues; other site 208963011704 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 208963011705 substrate binding site [chemical binding]; other site 208963011706 Protein of unknown function (DUF521); Region: DUF521; pfam04412 208963011707 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 208963011708 substrate binding site [chemical binding]; other site 208963011709 ligand binding site [chemical binding]; other site 208963011710 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963011711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963011712 dimer interface [polypeptide binding]; other site 208963011713 conserved gate region; other site 208963011714 putative PBP binding loops; other site 208963011715 ABC-ATPase subunit interface; other site 208963011716 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963011717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963011718 dimer interface [polypeptide binding]; other site 208963011719 conserved gate region; other site 208963011720 putative PBP binding loops; other site 208963011721 ABC-ATPase subunit interface; other site 208963011722 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 208963011723 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 208963011724 Walker A/P-loop; other site 208963011725 ATP binding site [chemical binding]; other site 208963011726 Q-loop/lid; other site 208963011727 ABC transporter signature motif; other site 208963011728 Walker B; other site 208963011729 D-loop; other site 208963011730 H-loop/switch region; other site 208963011731 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 208963011732 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 208963011733 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 208963011734 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 208963011735 inhibitor site; inhibition site 208963011736 active site 208963011737 dimer interface [polypeptide binding]; other site 208963011738 catalytic residue [active] 208963011739 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 208963011740 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 208963011741 dimer interface [polypeptide binding]; other site 208963011742 NADP binding site [chemical binding]; other site 208963011743 catalytic residues [active] 208963011744 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 208963011745 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 208963011746 HAMP domain; Region: HAMP; pfam00672 208963011747 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963011748 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963011749 dimer interface [polypeptide binding]; other site 208963011750 putative CheW interface [polypeptide binding]; other site 208963011751 Protease inhibitor Inh; Region: Inh; pfam02974 208963011752 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 208963011753 active site 208963011754 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 208963011755 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 208963011756 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 208963011757 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963011758 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963011759 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 208963011760 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963011761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963011762 Walker A/P-loop; other site 208963011763 ATP binding site [chemical binding]; other site 208963011764 Q-loop/lid; other site 208963011765 ABC transporter signature motif; other site 208963011766 Walker B; other site 208963011767 D-loop; other site 208963011768 H-loop/switch region; other site 208963011769 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 208963011770 GAF domain; Region: GAF; pfam01590 208963011771 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 208963011772 PAS domain; Region: PAS_9; pfam13426 208963011773 putative active site [active] 208963011774 heme pocket [chemical binding]; other site 208963011775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963011776 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 208963011777 dimer interface [polypeptide binding]; other site 208963011778 phosphorylation site [posttranslational modification] 208963011779 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963011780 ATP binding site [chemical binding]; other site 208963011781 Mg2+ binding site [ion binding]; other site 208963011782 G-X-G motif; other site 208963011783 Response regulator receiver domain; Region: Response_reg; pfam00072 208963011784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963011785 active site 208963011786 phosphorylation site [posttranslational modification] 208963011787 intermolecular recognition site; other site 208963011788 dimerization interface [polypeptide binding]; other site 208963011789 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 208963011790 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 208963011791 active site 208963011792 catalytic residues [active] 208963011793 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963011794 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963011795 enoyl-CoA hydratase; Provisional; Region: PRK06563 208963011796 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 208963011797 substrate binding site [chemical binding]; other site 208963011798 oxyanion hole (OAH) forming residues; other site 208963011799 trimer interface [polypeptide binding]; other site 208963011800 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 208963011801 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 208963011802 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 208963011803 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963011804 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963011805 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011806 putative substrate translocation pore; other site 208963011807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011808 Cupin domain; Region: Cupin_2; pfam07883 208963011809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963011810 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963011811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963011812 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 208963011813 Fusaric acid resistance protein family; Region: FUSC; pfam04632 208963011814 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 208963011815 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963011816 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963011817 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963011818 Phosphotransferase enzyme family; Region: APH; pfam01636 208963011819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963011820 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963011821 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 208963011822 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963011823 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 208963011824 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 208963011825 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 208963011826 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963011827 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 208963011828 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 208963011829 putative active site; other site 208963011830 catalytic triad [active] 208963011831 putative dimer interface [polypeptide binding]; other site 208963011832 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 208963011833 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 208963011834 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963011835 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011836 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 208963011837 dimerization interface [polypeptide binding]; other site 208963011838 substrate binding pocket [chemical binding]; other site 208963011839 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 208963011840 dimerization interface [polypeptide binding]; other site 208963011841 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 208963011842 MltA specific insert domain; Region: MltA; pfam03562 208963011843 3D domain; Region: 3D; pfam06725 208963011844 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 208963011845 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 208963011846 acyl-activating enzyme (AAE) consensus motif; other site 208963011847 AMP binding site [chemical binding]; other site 208963011848 Thioesterase domain; Region: Thioesterase; pfam00975 208963011849 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 208963011850 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 208963011851 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 208963011852 active site 208963011853 catalytic residues [active] 208963011854 metal binding site [ion binding]; metal-binding site 208963011855 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 208963011856 S-adenosylmethionine binding site [chemical binding]; other site 208963011857 AMP-binding enzyme; Region: AMP-binding; pfam00501 208963011858 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 208963011859 acyl-activating enzyme (AAE) consensus motif; other site 208963011860 AMP binding site [chemical binding]; other site 208963011861 active site 208963011862 CoA binding site [chemical binding]; other site 208963011863 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 208963011864 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 208963011865 active site 208963011866 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 208963011867 Ligand Binding Site [chemical binding]; other site 208963011868 Molecular Tunnel; other site 208963011869 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 208963011870 substrate binding pocket [chemical binding]; other site 208963011871 active site 208963011872 iron coordination sites [ion binding]; other site 208963011873 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963011874 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963011875 putative substrate translocation pore; other site 208963011876 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 208963011877 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963011878 Pirin-related protein [General function prediction only]; Region: COG1741 208963011879 Pirin; Region: Pirin; pfam02678 208963011880 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 208963011881 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 208963011882 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 208963011883 active site residue [active] 208963011884 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 208963011885 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 208963011886 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 208963011887 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 208963011888 TrkA-N domain; Region: TrkA_N; pfam02254 208963011889 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 208963011890 putative hydrophobic ligand binding site [chemical binding]; other site 208963011891 Pirin-related protein [General function prediction only]; Region: COG1741 208963011892 Pirin; Region: Pirin; pfam02678 208963011893 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 208963011894 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963011895 Predicted flavoprotein [General function prediction only]; Region: COG0431 208963011896 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 208963011897 Isochorismatase family; Region: Isochorismatase; pfam00857 208963011898 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 208963011899 catalytic triad [active] 208963011900 dimer interface [polypeptide binding]; other site 208963011901 conserved cis-peptide bond; other site 208963011902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963011903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011904 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 208963011905 putative effector binding pocket; other site 208963011906 dimerization interface [polypeptide binding]; other site 208963011907 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 208963011908 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 208963011909 S-adenosylmethionine binding site [chemical binding]; other site 208963011910 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 208963011911 NlpC/P60 family; Region: NLPC_P60; pfam00877 208963011912 murein hydrolase B; Provisional; Region: PRK10760; cl17906 208963011913 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 208963011914 NlpC/P60 family; Region: NLPC_P60; pfam00877 208963011915 NAD-dependent deacetylase; Provisional; Region: PRK00481 208963011916 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 208963011917 NAD+ binding site [chemical binding]; other site 208963011918 substrate binding site [chemical binding]; other site 208963011919 Zn binding site [ion binding]; other site 208963011920 PAS fold; Region: PAS_4; pfam08448 208963011921 photoactive yellow protein; Region: photo_yellow; TIGR02373 208963011922 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 208963011923 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 208963011924 Walker A motif; other site 208963011925 ATP binding site [chemical binding]; other site 208963011926 Walker B motif; other site 208963011927 arginine finger; other site 208963011928 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 208963011929 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 208963011930 Amidinotransferase; Region: Amidinotransf; cl12043 208963011931 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 208963011932 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 208963011933 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 208963011934 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 208963011935 Ligand Binding Site [chemical binding]; other site 208963011936 integrase; Provisional; Region: int; PHA02601 208963011937 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 208963011938 active site 208963011939 DNA binding site [nucleotide binding] 208963011940 Int/Topo IB signature motif; other site 208963011941 Replication initiation factor; Region: Rep_trans; pfam02486 208963011942 Zonular occludens toxin (Zot); Region: Zot; cl17485 208963011943 putative assembly protein; Region: PHA00350 208963011944 hypothetical protein; Region: PHA01159 208963011945 Phage Coat protein B; Region: Phage_Coat_B; pfam05356 208963011946 Helix-turn-helix domain; Region: HTH_17; cl17695 208963011947 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 208963011948 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 208963011949 P-loop; other site 208963011950 Magnesium ion binding site [ion binding]; other site 208963011951 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 208963011952 DNA-J related protein; Region: DNAJ_related; pfam12339 208963011953 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 208963011954 HSP70 interaction site [polypeptide binding]; other site 208963011955 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 208963011956 hypothetical protein; Provisional; Region: PRK04860 208963011957 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 208963011958 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 208963011959 CoA-transferase family III; Region: CoA_transf_3; pfam02515 208963011960 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963011961 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963011962 active site 208963011963 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 208963011964 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 208963011965 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 208963011966 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 208963011967 C-terminal domain interface [polypeptide binding]; other site 208963011968 GSH binding site (G-site) [chemical binding]; other site 208963011969 dimer interface [polypeptide binding]; other site 208963011970 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 208963011971 dimer interface [polypeptide binding]; other site 208963011972 N-terminal domain interface [polypeptide binding]; other site 208963011973 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963011974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963011975 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 208963011976 dimerization interface [polypeptide binding]; other site 208963011977 substrate binding pocket [chemical binding]; other site 208963011978 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 208963011979 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 208963011980 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963011981 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963011982 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963011983 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 208963011984 putative diguanylate cyclase; Provisional; Region: PRK09776 208963011985 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 208963011986 putative active site [active] 208963011987 heme pocket [chemical binding]; other site 208963011988 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 208963011989 putative active site [active] 208963011990 heme pocket [chemical binding]; other site 208963011991 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 208963011992 putative active site [active] 208963011993 heme pocket [chemical binding]; other site 208963011994 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963011995 metal binding site [ion binding]; metal-binding site 208963011996 active site 208963011997 I-site; other site 208963011998 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 208963011999 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 208963012000 dimer interface [polypeptide binding]; other site 208963012001 phosphorylation site [posttranslational modification] 208963012002 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963012003 ATP binding site [chemical binding]; other site 208963012004 G-X-G motif; other site 208963012005 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 208963012006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963012007 active site 208963012008 phosphorylation site [posttranslational modification] 208963012009 intermolecular recognition site; other site 208963012010 dimerization interface [polypeptide binding]; other site 208963012011 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 208963012012 DNA binding site [nucleotide binding] 208963012013 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 208963012014 Periplasmic nitrate reductase system, NapE component [Energy production and conversion]; Region: NapE; COG4459 208963012015 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 208963012016 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 208963012017 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 208963012018 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 208963012019 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 208963012020 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 208963012021 [4Fe-4S] binding site [ion binding]; other site 208963012022 molybdopterin cofactor binding site; other site 208963012023 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 208963012024 molybdopterin cofactor binding site; other site 208963012025 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 208963012026 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 208963012027 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 208963012028 Transglycosylase SLT domain; Region: SLT_2; pfam13406 208963012029 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 208963012030 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963012031 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 208963012032 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 208963012033 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 208963012034 Lipoxygenase; Region: Lipoxygenase; pfam00305 208963012035 Alginate lyase; Region: Alginate_lyase2; pfam08787 208963012036 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 208963012037 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963012038 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 208963012039 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 208963012040 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 208963012041 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 208963012042 putative ATP binding site [chemical binding]; other site 208963012043 putative substrate interface [chemical binding]; other site 208963012044 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 208963012045 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 208963012046 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 208963012047 active site 208963012048 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 208963012049 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 208963012050 metal binding site [ion binding]; metal-binding site 208963012051 dimer interface [polypeptide binding]; other site 208963012052 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 208963012053 Methyltransferase domain; Region: Methyltransf_11; pfam08241 208963012054 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 208963012055 DNA-binding site [nucleotide binding]; DNA binding site 208963012056 RNA-binding motif; other site 208963012057 sensor protein RstB; Provisional; Region: PRK10604 208963012058 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 208963012059 dimerization interface [polypeptide binding]; other site 208963012060 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 208963012061 dimer interface [polypeptide binding]; other site 208963012062 phosphorylation site [posttranslational modification] 208963012063 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963012064 ATP binding site [chemical binding]; other site 208963012065 Mg2+ binding site [ion binding]; other site 208963012066 G-X-G motif; other site 208963012067 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 208963012068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963012069 active site 208963012070 phosphorylation site [posttranslational modification] 208963012071 intermolecular recognition site; other site 208963012072 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 208963012073 DNA binding site [nucleotide binding] 208963012074 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 208963012075 ATP cone domain; Region: ATP-cone; pfam03477 208963012076 ATP cone domain; Region: ATP-cone; pfam03477 208963012077 Class I ribonucleotide reductase; Region: RNR_I; cd01679 208963012078 active site 208963012079 dimer interface [polypeptide binding]; other site 208963012080 catalytic residues [active] 208963012081 effector binding site; other site 208963012082 R2 peptide binding site; other site 208963012083 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 208963012084 dimer interface [polypeptide binding]; other site 208963012085 putative radical transfer pathway; other site 208963012086 diiron center [ion binding]; other site 208963012087 tyrosyl radical; other site 208963012088 AAA ATPase domain; Region: AAA_15; pfam13175 208963012089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963012090 Walker A/P-loop; other site 208963012091 ATP binding site [chemical binding]; other site 208963012092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 208963012093 Walker B; other site 208963012094 D-loop; other site 208963012095 H-loop/switch region; other site 208963012096 Prophage antirepressor [Transcription]; Region: COG3617 208963012097 BRO family, N-terminal domain; Region: Bro-N; smart01040 208963012098 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 208963012099 S-type Pyocin; Region: Pyocin_S; pfam06958 208963012100 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 208963012101 Exotoxin A binding; Region: Exotox-A_bind; pfam09101 208963012102 Exotoxin A, targeting; Region: Exotox-A_target; pfam09102 208963012103 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 208963012104 nad+ binding pocket [chemical binding]; other site 208963012105 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 208963012106 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 208963012107 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 208963012108 putative active site [active] 208963012109 metal binding site [ion binding]; metal-binding site 208963012110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012112 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 208963012113 dimerization interface [polypeptide binding]; other site 208963012114 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 208963012115 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963012116 putative substrate translocation pore; other site 208963012117 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 208963012118 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 208963012119 transcriptional regulator protein; Region: phnR; TIGR03337 208963012120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963012121 DNA-binding site [nucleotide binding]; DNA binding site 208963012122 UTRA domain; Region: UTRA; pfam07702 208963012123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012125 LysR substrate binding domain; Region: LysR_substrate; pfam03466 208963012126 dimerization interface [polypeptide binding]; other site 208963012127 hypothetical protein; Provisional; Region: PRK11171 208963012128 Cupin domain; Region: Cupin_2; pfam07883 208963012129 Cupin domain; Region: Cupin_2; pfam07883 208963012130 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 208963012131 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 208963012132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012134 LysR substrate binding domain; Region: LysR_substrate; pfam03466 208963012135 dimerization interface [polypeptide binding]; other site 208963012136 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 208963012137 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 208963012138 NAD(P) binding site [chemical binding]; other site 208963012139 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 208963012140 Autoinducer binding domain; Region: Autoind_bind; pfam03472 208963012141 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 208963012142 DNA binding residues [nucleotide binding] 208963012143 dimerization interface [polypeptide binding]; other site 208963012144 chaperone protein HchA; Provisional; Region: PRK04155 208963012145 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 208963012146 conserved cys residue [active] 208963012147 Protein of unknown function, DUF393; Region: DUF393; cl01136 208963012148 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963012149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963012150 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 208963012151 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 208963012152 Ligand binding site; other site 208963012153 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 208963012154 dimer interface [polypeptide binding]; other site 208963012155 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963012156 Mn binding site [ion binding]; other site 208963012157 K binding site [ion binding]; other site 208963012158 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012159 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012160 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 208963012161 putative effector binding pocket; other site 208963012162 putative dimerization interface [polypeptide binding]; other site 208963012163 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 208963012164 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963012165 active site 208963012166 catalytic tetrad [active] 208963012167 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 208963012168 NAD-dependent deacetylase; Provisional; Region: PRK00481 208963012169 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 208963012170 NAD+ binding site [chemical binding]; other site 208963012171 substrate binding site [chemical binding]; other site 208963012172 Zn binding site [ion binding]; other site 208963012173 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 208963012174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963012175 Zn2+ binding site [ion binding]; other site 208963012176 Mg2+ binding site [ion binding]; other site 208963012177 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 208963012178 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 208963012179 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 208963012180 active site 208963012181 catalytic residues [active] 208963012182 metal binding site [ion binding]; metal-binding site 208963012183 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 208963012184 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 208963012185 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 208963012186 dimerization interface [polypeptide binding]; other site 208963012187 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963012188 metal binding site [ion binding]; metal-binding site 208963012189 active site 208963012190 I-site; other site 208963012191 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963012192 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963012193 ligand binding site [chemical binding]; other site 208963012194 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 208963012195 S1 domain; Region: S1_2; pfam13509 208963012196 S1 domain; Region: S1_2; pfam13509 208963012197 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 208963012198 Sulfatase; Region: Sulfatase; pfam00884 208963012199 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 208963012200 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 208963012201 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 208963012202 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963012203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963012204 Walker A/P-loop; other site 208963012205 ATP binding site [chemical binding]; other site 208963012206 Q-loop/lid; other site 208963012207 ABC transporter signature motif; other site 208963012208 Walker B; other site 208963012209 D-loop; other site 208963012210 H-loop/switch region; other site 208963012211 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 208963012212 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 208963012213 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 208963012214 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 208963012215 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 208963012216 RNA binding surface [nucleotide binding]; other site 208963012217 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 208963012218 active site 208963012219 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963012220 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963012221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963012222 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963012223 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963012224 metal binding site [ion binding]; metal-binding site 208963012225 active site 208963012226 I-site; other site 208963012227 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 208963012228 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 208963012229 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 208963012230 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 208963012231 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 208963012232 Walker A motif/ATP binding site; other site 208963012233 Walker B motif; other site 208963012234 flagellar assembly protein H; Validated; Region: fliH; PRK05687 208963012235 Flagellar assembly protein FliH; Region: FliH; pfam02108 208963012236 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 208963012237 MgtE intracellular N domain; Region: MgtE_N; smart00924 208963012238 FliG C-terminal domain; Region: FliG_C; pfam01706 208963012239 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 208963012240 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 208963012241 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 208963012242 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 208963012243 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963012244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963012245 active site 208963012246 phosphorylation site [posttranslational modification] 208963012247 intermolecular recognition site; other site 208963012248 dimerization interface [polypeptide binding]; other site 208963012249 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 208963012250 Walker A motif; other site 208963012251 ATP binding site [chemical binding]; other site 208963012252 Walker B motif; other site 208963012253 arginine finger; other site 208963012254 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963012255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963012256 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 208963012257 putative active site [active] 208963012258 heme pocket [chemical binding]; other site 208963012259 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 208963012260 dimer interface [polypeptide binding]; other site 208963012261 phosphorylation site [posttranslational modification] 208963012262 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963012263 ATP binding site [chemical binding]; other site 208963012264 Mg2+ binding site [ion binding]; other site 208963012265 G-X-G motif; other site 208963012266 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963012267 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 208963012268 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 208963012269 Walker A motif; other site 208963012270 ATP binding site [chemical binding]; other site 208963012271 Walker B motif; other site 208963012272 arginine finger; other site 208963012273 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963012274 flagellar protein FliS; Validated; Region: fliS; PRK05685 208963012275 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 208963012276 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 208963012277 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 208963012278 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 208963012279 Uncharacterized flagellar protein FlaG [Cell motility and secretion]; Region: FlaG; COG1334 208963012280 flagellin; Provisional; Region: PRK12806 208963012281 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 208963012282 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 208963012283 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 208963012284 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 208963012285 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 208963012286 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 208963012287 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 208963012288 active site 208963012289 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 208963012290 Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1213 208963012291 active site 208963012292 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 208963012293 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 208963012294 Soluble P-type ATPase [General function prediction only]; Region: COG4087 208963012295 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963012296 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 208963012297 S-adenosylmethionine binding site [chemical binding]; other site 208963012298 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 208963012299 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 208963012300 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 208963012301 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 208963012302 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 208963012303 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 208963012304 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 208963012305 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 208963012306 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 208963012307 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 208963012308 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 208963012309 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 208963012310 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 208963012311 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 208963012312 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 208963012313 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 208963012314 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 208963012315 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 208963012316 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 208963012317 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 208963012318 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 208963012319 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 208963012320 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 208963012321 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 208963012322 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 208963012323 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 208963012324 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 208963012325 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 208963012326 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 208963012327 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 208963012328 Uncharacterized small conserved protein [Function unknown]; Region: COG5626 208963012329 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 208963012330 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 208963012331 dimerization interface [polypeptide binding]; other site 208963012332 ligand binding site [chemical binding]; other site 208963012333 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 208963012334 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 208963012335 TM-ABC transporter signature motif; other site 208963012336 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 208963012337 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 208963012338 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 208963012339 TM-ABC transporter signature motif; other site 208963012340 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 208963012341 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 208963012342 Walker A/P-loop; other site 208963012343 ATP binding site [chemical binding]; other site 208963012344 Q-loop/lid; other site 208963012345 ABC transporter signature motif; other site 208963012346 Walker B; other site 208963012347 D-loop; other site 208963012348 H-loop/switch region; other site 208963012349 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 208963012350 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 208963012351 Walker A/P-loop; other site 208963012352 ATP binding site [chemical binding]; other site 208963012353 Q-loop/lid; other site 208963012354 ABC transporter signature motif; other site 208963012355 Walker B; other site 208963012356 D-loop; other site 208963012357 H-loop/switch region; other site 208963012358 NMDA receptor-regulated protein 1; Region: NARP1; pfam12569 208963012359 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 208963012360 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 208963012361 ATP binding site [chemical binding]; other site 208963012362 Mg2+ binding site [ion binding]; other site 208963012363 G-X-G motif; other site 208963012364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012366 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 208963012367 putative effector binding pocket; other site 208963012368 dimerization interface [polypeptide binding]; other site 208963012369 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 208963012370 putative NAD(P) binding site [chemical binding]; other site 208963012371 homodimer interface [polypeptide binding]; other site 208963012372 Uncharacterized conserved protein [Function unknown]; Region: COG3189 208963012373 Predicted membrane protein [Function unknown]; Region: COG3650 208963012374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 208963012375 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 208963012376 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 208963012377 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963012378 catalytic residue [active] 208963012379 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 208963012380 EamA-like transporter family; Region: EamA; pfam00892 208963012381 EamA-like transporter family; Region: EamA; pfam00892 208963012382 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 208963012383 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 208963012384 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 208963012385 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 208963012386 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 208963012387 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 208963012388 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 208963012389 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 208963012390 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 208963012391 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 208963012392 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 208963012393 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 208963012394 fructuronate transporter; Provisional; Region: PRK10034; cl15264 208963012395 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 208963012396 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 208963012397 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 208963012398 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 208963012399 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 208963012400 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 208963012401 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963012402 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963012403 ligand binding site [chemical binding]; other site 208963012404 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 208963012405 Beta-lactamase; Region: Beta-lactamase; pfam00144 208963012406 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 208963012407 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 208963012408 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 208963012409 Predicted integral membrane protein [Function unknown]; Region: COG5615 208963012410 Predicted membrane protein [Function unknown]; Region: COG3776 208963012411 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963012412 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963012413 ligand binding site [chemical binding]; other site 208963012414 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963012415 SEC-C motif; Region: SEC-C; pfam02810 208963012416 hypothetical protein; Provisional; Region: PRK04233 208963012417 Predicted membrane protein [Function unknown]; Region: COG2860 208963012418 UPF0126 domain; Region: UPF0126; pfam03458 208963012419 UPF0126 domain; Region: UPF0126; pfam03458 208963012420 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 208963012421 Water Stress and Hypersensitive response; Region: WHy; smart00769 208963012422 SEC-C motif; Region: SEC-C; pfam02810 208963012423 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 208963012424 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 208963012425 C-terminal domain interface [polypeptide binding]; other site 208963012426 GSH binding site (G-site) [chemical binding]; other site 208963012427 dimer interface [polypeptide binding]; other site 208963012428 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 208963012429 N-terminal domain interface [polypeptide binding]; other site 208963012430 putative dimer interface [polypeptide binding]; other site 208963012431 active site 208963012432 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 208963012433 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 208963012434 active site 208963012435 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 208963012436 RmuC family; Region: RmuC; pfam02646 208963012437 RES domain; Region: RES; smart00953 208963012438 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 208963012439 sequence-specific DNA binding site [nucleotide binding]; other site 208963012440 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 208963012441 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963012442 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963012443 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 208963012444 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 208963012445 tetrameric interface [polypeptide binding]; other site 208963012446 NAD binding site [chemical binding]; other site 208963012447 catalytic residues [active] 208963012448 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 208963012449 outer membrane porin, OprD family; Region: OprD; pfam03573 208963012450 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 208963012451 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 208963012452 FMN binding site [chemical binding]; other site 208963012453 substrate binding site [chemical binding]; other site 208963012454 putative catalytic residue [active] 208963012455 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 208963012456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963012457 NAD(P) binding site [chemical binding]; other site 208963012458 active site 208963012459 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 208963012460 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963012461 active site 208963012462 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 208963012463 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 208963012464 substrate binding site [chemical binding]; other site 208963012465 oxyanion hole (OAH) forming residues; other site 208963012466 trimer interface [polypeptide binding]; other site 208963012467 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 208963012468 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963012469 active site 208963012470 benzoate transport; Region: 2A0115; TIGR00895 208963012471 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963012472 putative substrate translocation pore; other site 208963012473 enoyl-CoA hydratase; Region: PLN02864 208963012474 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 208963012475 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 208963012476 dimer interaction site [polypeptide binding]; other site 208963012477 substrate-binding tunnel; other site 208963012478 active site 208963012479 catalytic site [active] 208963012480 substrate binding site [chemical binding]; other site 208963012481 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 208963012482 CoA binding domain; Region: CoA_binding_2; pfam13380 208963012483 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 208963012484 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 208963012485 thiolase; Provisional; Region: PRK06158 208963012486 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 208963012487 active site 208963012488 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 208963012489 DUF35 OB-fold domain; Region: DUF35; pfam01796 208963012490 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 208963012491 Transcriptional regulator [Transcription]; Region: IclR; COG1414 208963012492 Bacterial transcriptional regulator; Region: IclR; pfam01614 208963012493 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 208963012494 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 208963012495 active site 208963012496 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 208963012497 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 208963012498 ATP binding site [chemical binding]; other site 208963012499 active site 208963012500 substrate binding site [chemical binding]; other site 208963012501 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 208963012502 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 208963012503 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 208963012504 dihydrodipicolinate synthase; Region: dapA; TIGR00674 208963012505 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 208963012506 dimer interface [polypeptide binding]; other site 208963012507 active site 208963012508 catalytic residue [active] 208963012509 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 208963012510 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 208963012511 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 208963012512 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 208963012513 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 208963012514 catalytic triad [active] 208963012515 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 208963012516 Domain of unknown function DUF20; Region: UPF0118; pfam01594 208963012517 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 208963012518 CPxP motif; other site 208963012519 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 208963012520 Peptidase family M48; Region: Peptidase_M48; cl12018 208963012521 quinolinate synthetase; Provisional; Region: PRK09375 208963012522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012524 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 208963012525 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 208963012526 Glutamine amidotransferase class-I; Region: GATase; pfam00117 208963012527 glutamine binding [chemical binding]; other site 208963012528 catalytic triad [active] 208963012529 anthranilate synthase component I; Provisional; Region: PRK13564 208963012530 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 208963012531 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 208963012532 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 208963012533 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 208963012534 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 208963012535 dimer interface [polypeptide binding]; other site 208963012536 active site 208963012537 CoA binding pocket [chemical binding]; other site 208963012538 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 208963012539 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 208963012540 active site 208963012541 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 208963012542 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 208963012543 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 208963012544 Benzoate CoA ligase (BCL) and similar adenylate forming enzymes; Region: BCL_like; cd05919 208963012545 dimer interface [polypeptide binding]; other site 208963012546 acyl-activating enzyme (AAE) consensus motif; other site 208963012547 putative active site [active] 208963012548 putative AMP binding site [chemical binding]; other site 208963012549 putative CoA binding site [chemical binding]; other site 208963012550 chemical substrate binding site [chemical binding]; other site 208963012551 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 208963012552 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 208963012553 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 208963012554 DNA binding site [nucleotide binding] 208963012555 active site 208963012556 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 208963012557 PapC N-terminal domain; Region: PapC_N; pfam13954 208963012558 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 208963012559 PapC C-terminal domain; Region: PapC_C; pfam13953 208963012560 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 208963012561 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963012562 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 208963012563 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 208963012564 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 208963012565 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 208963012566 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 208963012567 nudix motif; other site 208963012568 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 208963012569 active site 208963012570 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 208963012571 active site 208963012572 nucleophile elbow; other site 208963012573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 208963012574 Integrase core domain; Region: rve; pfam00665 208963012575 Integrase core domain; Region: rve_3; pfam13683 208963012576 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 208963012577 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 208963012578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963012579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963012580 Coenzyme A binding pocket [chemical binding]; other site 208963012581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 208963012582 Transposase; Region: HTH_Tnp_1; pfam01527 208963012583 HTH-like domain; Region: HTH_21; pfam13276 208963012584 Integrase core domain; Region: rve; pfam00665 208963012585 DDE domain; Region: DDE_Tnp_IS240; pfam13610 208963012586 Integrase core domain; Region: rve_3; pfam13683 208963012587 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 208963012588 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 208963012589 active site 208963012590 catalytic residues [active] 208963012591 DNA binding site [nucleotide binding] 208963012592 Int/Topo IB signature motif; other site 208963012593 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 208963012594 Ligand Binding Site [chemical binding]; other site 208963012595 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 208963012596 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 208963012597 FeS/SAM binding site; other site 208963012598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 208963012599 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 208963012600 binding surface 208963012601 TPR motif; other site 208963012602 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963012603 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963012604 ligand binding site [chemical binding]; other site 208963012605 translocation protein TolB; Provisional; Region: tolB; PRK00178 208963012606 TolB amino-terminal domain; Region: TolB_N; pfam04052 208963012607 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 208963012608 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 208963012609 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 208963012610 TolA protein; Region: tolA_full; TIGR02794 208963012611 TolA protein; Region: tolA_full; TIGR02794 208963012612 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 208963012613 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 208963012614 TolR protein; Region: tolR; TIGR02801 208963012615 TolQ protein; Region: tolQ; TIGR02796 208963012616 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 208963012617 active site 208963012618 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 208963012619 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 208963012620 Walker A motif; other site 208963012621 ATP binding site [chemical binding]; other site 208963012622 Walker B motif; other site 208963012623 arginine finger; other site 208963012624 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 208963012625 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 208963012626 RuvA N terminal domain; Region: RuvA_N; pfam01330 208963012627 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 208963012628 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 208963012629 active site 208963012630 putative DNA-binding cleft [nucleotide binding]; other site 208963012631 dimer interface [polypeptide binding]; other site 208963012632 hypothetical protein; Validated; Region: PRK00110 208963012633 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 208963012634 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 208963012635 dimer interface [polypeptide binding]; other site 208963012636 anticodon binding site; other site 208963012637 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 208963012638 homodimer interface [polypeptide binding]; other site 208963012639 motif 1; other site 208963012640 active site 208963012641 motif 2; other site 208963012642 GAD domain; Region: GAD; pfam02938 208963012643 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 208963012644 active site 208963012645 motif 3; other site 208963012646 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 208963012647 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 208963012648 dimerization interface [polypeptide binding]; other site 208963012649 DPS ferroxidase diiron center [ion binding]; other site 208963012650 ion pore; other site 208963012651 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 208963012652 DNA-binding site [nucleotide binding]; DNA binding site 208963012653 RNA-binding motif; other site 208963012654 hypothetical protein; Provisional; Region: PRK00295 208963012655 HIT domain; Region: HIT; pfam01230 208963012656 nucleotide binding site/active site [active] 208963012657 HIT family signature motif; other site 208963012658 catalytic residue [active] 208963012659 outer membrane porin, OprD family; Region: OprD; pfam03573 208963012660 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 208963012661 CoenzymeA binding site [chemical binding]; other site 208963012662 subunit interaction site [polypeptide binding]; other site 208963012663 PHB binding site; other site 208963012664 prolyl-tRNA synthetase; Provisional; Region: PRK09194 208963012665 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 208963012666 dimer interface [polypeptide binding]; other site 208963012667 motif 1; other site 208963012668 active site 208963012669 motif 2; other site 208963012670 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 208963012671 putative deacylase active site [active] 208963012672 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 208963012673 active site 208963012674 motif 3; other site 208963012675 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 208963012676 anticodon binding site; other site 208963012677 acylphosphatase; Provisional; Region: PRK14442 208963012678 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 208963012679 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 208963012680 catalytic residues [active] 208963012681 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 208963012682 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 208963012683 ArsC family; Region: ArsC; pfam03960 208963012684 catalytic residues [active] 208963012685 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 208963012686 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963012687 Predicted membrane protein [Function unknown]; Region: COG3308 208963012688 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 208963012689 DNA replication initiation factor; Validated; Region: PRK05642 208963012690 Walker A motif; other site 208963012691 ATP binding site [chemical binding]; other site 208963012692 Walker B motif; other site 208963012693 arginine finger; other site 208963012694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 208963012695 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 208963012696 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 208963012697 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 208963012698 dimerization interface [polypeptide binding]; other site 208963012699 putative ATP binding site [chemical binding]; other site 208963012700 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 208963012701 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 208963012702 active site 208963012703 substrate binding site [chemical binding]; other site 208963012704 cosubstrate binding site; other site 208963012705 catalytic site [active] 208963012706 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 208963012707 Transcriptional regulators [Transcription]; Region: MarR; COG1846 208963012708 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 208963012709 MarR family; Region: MarR_2; cl17246 208963012710 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 208963012711 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 208963012712 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 208963012713 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 208963012714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 208963012715 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 208963012716 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 208963012717 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 208963012718 homodimer interface [polypeptide binding]; other site 208963012719 metal binding site [ion binding]; metal-binding site 208963012720 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 208963012721 homodimer interface [polypeptide binding]; other site 208963012722 active site 208963012723 putative chemical substrate binding site [chemical binding]; other site 208963012724 metal binding site [ion binding]; metal-binding site 208963012725 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 208963012726 HD domain; Region: HD_4; pfam13328 208963012727 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 208963012728 synthetase active site [active] 208963012729 NTP binding site [chemical binding]; other site 208963012730 metal binding site [ion binding]; metal-binding site 208963012731 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 208963012732 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 208963012733 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 208963012734 TRAM domain; Region: TRAM; pfam01938 208963012735 cysteine synthase B; Region: cysM; TIGR01138 208963012736 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 208963012737 dimer interface [polypeptide binding]; other site 208963012738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963012739 catalytic residue [active] 208963012740 outer membrane receptor FepA; Provisional; Region: PRK13528 208963012741 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 208963012742 N-terminal plug; other site 208963012743 ligand-binding site [chemical binding]; other site 208963012744 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963012745 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 208963012746 dimerization interface [polypeptide binding]; other site 208963012747 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 208963012748 dimer interface [polypeptide binding]; other site 208963012749 phosphorylation site [posttranslational modification] 208963012750 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963012751 ATP binding site [chemical binding]; other site 208963012752 G-X-G motif; other site 208963012753 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963012754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963012755 active site 208963012756 phosphorylation site [posttranslational modification] 208963012757 intermolecular recognition site; other site 208963012758 dimerization interface [polypeptide binding]; other site 208963012759 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 208963012760 DNA binding site [nucleotide binding] 208963012761 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 208963012762 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 208963012763 dimerization interface [polypeptide binding]; other site 208963012764 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 208963012765 dimer interface [polypeptide binding]; other site 208963012766 phosphorylation site [posttranslational modification] 208963012767 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963012768 ATP binding site [chemical binding]; other site 208963012769 Mg2+ binding site [ion binding]; other site 208963012770 G-X-G motif; other site 208963012771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963012772 active site 208963012773 phosphorylation site [posttranslational modification] 208963012774 intermolecular recognition site; other site 208963012775 dimerization interface [polypeptide binding]; other site 208963012776 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 208963012777 putative binding surface; other site 208963012778 active site 208963012779 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 208963012780 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 208963012781 putative ligand binding site [chemical binding]; other site 208963012782 putative NAD binding site [chemical binding]; other site 208963012783 catalytic site [active] 208963012784 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 208963012785 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 208963012786 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 208963012787 Sulfatase; Region: Sulfatase; cl17466 208963012788 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 208963012789 active site 208963012790 DNA polymerase IV; Validated; Region: PRK02406 208963012791 DNA binding site [nucleotide binding] 208963012792 Replication protein A C terminal; Region: RPA_C; pfam08784 208963012793 Predicted integral membrane protein [Function unknown]; Region: COG0392 208963012794 Uncharacterized conserved protein [Function unknown]; Region: COG2898 208963012795 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 208963012796 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 208963012797 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 208963012798 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 208963012799 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 208963012800 potassium uptake protein; Region: kup; TIGR00794 208963012801 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 208963012802 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 208963012803 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 208963012804 FeS/SAM binding site; other site 208963012805 TRAM domain; Region: TRAM; pfam01938 208963012806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 208963012807 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 208963012808 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 208963012809 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 208963012810 MgtE intracellular N domain; Region: MgtE_N; smart00924 208963012811 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 208963012812 Divalent cation transporter; Region: MgtE; pfam01769 208963012813 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 208963012814 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 208963012815 Protein of unknown function (DUF754); Region: DUF754; pfam05449 208963012816 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 208963012817 non-specific DNA binding site [nucleotide binding]; other site 208963012818 Predicted transcriptional regulator [Transcription]; Region: COG2932 208963012819 salt bridge; other site 208963012820 sequence-specific DNA binding site [nucleotide binding]; other site 208963012821 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 208963012822 Catalytic site [active] 208963012823 carbon storage regulator; Provisional; Region: PRK01712 208963012824 aspartate kinase; Reviewed; Region: PRK06635 208963012825 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 208963012826 putative nucleotide binding site [chemical binding]; other site 208963012827 putative catalytic residues [active] 208963012828 putative Mg ion binding site [ion binding]; other site 208963012829 putative aspartate binding site [chemical binding]; other site 208963012830 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 208963012831 putative allosteric regulatory site; other site 208963012832 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 208963012833 putative allosteric regulatory residue; other site 208963012834 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 208963012835 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 208963012836 motif 1; other site 208963012837 active site 208963012838 motif 2; other site 208963012839 motif 3; other site 208963012840 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 208963012841 DHHA1 domain; Region: DHHA1; pfam02272 208963012842 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 208963012843 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 208963012844 tetramer interface [polypeptide binding]; other site 208963012845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963012846 catalytic residue [active] 208963012847 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 208963012848 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 208963012849 putative active site [active] 208963012850 Zn binding site [ion binding]; other site 208963012851 succinylarginine dihydrolase; Provisional; Region: PRK13281 208963012852 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 208963012853 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 208963012854 NAD(P) binding site [chemical binding]; other site 208963012855 catalytic residues [active] 208963012856 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 208963012857 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 208963012858 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 208963012859 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 208963012860 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 208963012861 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 208963012862 inhibitor-cofactor binding pocket; inhibition site 208963012863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963012864 catalytic residue [active] 208963012865 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 208963012866 conserved cys residue [active] 208963012867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963012868 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963012869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963012870 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 208963012871 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 208963012872 Walker A/P-loop; other site 208963012873 ATP binding site [chemical binding]; other site 208963012874 Q-loop/lid; other site 208963012875 ABC transporter signature motif; other site 208963012876 Walker B; other site 208963012877 D-loop; other site 208963012878 H-loop/switch region; other site 208963012879 Predicted deacylase [General function prediction only]; Region: COG3608 208963012880 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 208963012881 active site 208963012882 Zn binding site [ion binding]; other site 208963012883 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963012884 dimer interface [polypeptide binding]; other site 208963012885 conserved gate region; other site 208963012886 putative PBP binding loops; other site 208963012887 ABC-ATPase subunit interface; other site 208963012888 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963012889 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963012890 dimer interface [polypeptide binding]; other site 208963012891 conserved gate region; other site 208963012892 putative PBP binding loops; other site 208963012893 ABC-ATPase subunit interface; other site 208963012894 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 208963012895 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 208963012896 substrate binding pocket [chemical binding]; other site 208963012897 membrane-bound complex binding site; other site 208963012898 hinge residues; other site 208963012899 acetyl-CoA synthetase; Provisional; Region: PRK00174 208963012900 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 208963012901 active site 208963012902 CoA binding site [chemical binding]; other site 208963012903 acyl-activating enzyme (AAE) consensus motif; other site 208963012904 AMP binding site [chemical binding]; other site 208963012905 acetate binding site [chemical binding]; other site 208963012906 DctM-like transporters; Region: DctM; pfam06808 208963012907 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 208963012908 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 208963012909 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 208963012910 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 208963012911 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 208963012912 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 208963012913 CoA-transferase family III; Region: CoA_transf_3; pfam02515 208963012914 MmgE/PrpD family; Region: MmgE_PrpD; pfam03972 208963012915 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 208963012916 dimer interface [polypeptide binding]; other site 208963012917 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963012918 metal binding site [ion binding]; metal-binding site 208963012919 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963012920 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963012921 active site 208963012922 Uncharacterized conserved protein [Function unknown]; Region: COG3777 208963012923 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 208963012924 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 208963012925 active site 2 [active] 208963012926 active site 1 [active] 208963012927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012929 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 208963012930 putative dimerization interface [polypeptide binding]; other site 208963012931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963012932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963012933 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 208963012934 putative effector binding pocket; other site 208963012935 dimerization interface [polypeptide binding]; other site 208963012936 Fusaric acid resistance protein family; Region: FUSC; pfam04632 208963012937 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 208963012938 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 208963012939 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 208963012940 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 208963012941 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 208963012942 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 208963012943 putative active site [active] 208963012944 heme pocket [chemical binding]; other site 208963012945 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 208963012946 Walker A motif; other site 208963012947 ATP binding site [chemical binding]; other site 208963012948 Walker B motif; other site 208963012949 arginine finger; other site 208963012950 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 208963012951 cofactor binding site; other site 208963012952 metal binding site [ion binding]; metal-binding site 208963012953 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 208963012954 aromatic arch; other site 208963012955 DCoH dimer interaction site [polypeptide binding]; other site 208963012956 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 208963012957 DCoH tetramer interaction site [polypeptide binding]; other site 208963012958 substrate binding site [chemical binding]; other site 208963012959 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 208963012960 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 208963012961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963012962 homodimer interface [polypeptide binding]; other site 208963012963 catalytic residue [active] 208963012964 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 208963012965 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 208963012966 hypothetical protein; Provisional; Region: PRK09256 208963012967 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 208963012968 lysozyme inhibitor; Provisional; Region: PRK13792 208963012969 Predicted periplasmic protein [General function prediction only]; Region: COG3895 208963012970 aromatic amino acid transporter; Provisional; Region: PRK10238 208963012971 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 208963012972 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 208963012973 dimer interface [polypeptide binding]; other site 208963012974 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 208963012975 active site 208963012976 Fe binding site [ion binding]; other site 208963012977 Cupin domain; Region: Cupin_2; cl17218 208963012978 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963012979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963012980 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963012981 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 208963012982 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 208963012983 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 208963012984 putative NAD(P) binding site [chemical binding]; other site 208963012985 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 208963012986 PAS domain S-box; Region: sensory_box; TIGR00229 208963012987 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 208963012988 putative active site [active] 208963012989 heme pocket [chemical binding]; other site 208963012990 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963012991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963012992 metal binding site [ion binding]; metal-binding site 208963012993 active site 208963012994 I-site; other site 208963012995 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 208963012996 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963012997 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963012998 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 208963012999 Walker A/P-loop; other site 208963013000 ATP binding site [chemical binding]; other site 208963013001 Q-loop/lid; other site 208963013002 ABC transporter signature motif; other site 208963013003 Walker B; other site 208963013004 D-loop; other site 208963013005 H-loop/switch region; other site 208963013006 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 208963013007 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 208963013008 catalytic residues [active] 208963013009 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 208963013010 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 208963013011 active site residue [active] 208963013012 BolA-like protein; Region: BolA; cl00386 208963013013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 208963013014 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 208963013015 fumarate hydratase; Provisional; Region: PRK12425 208963013016 Class II fumarases; Region: Fumarase_classII; cd01362 208963013017 active site 208963013018 tetramer interface [polypeptide binding]; other site 208963013019 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 208963013020 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963013021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 208963013022 Chitin binding domain; Region: Chitin_bind_3; pfam03067 208963013023 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 208963013024 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 208963013025 tetramer interface [polypeptide binding]; other site 208963013026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963013027 catalytic residue [active] 208963013028 MAPEG family; Region: MAPEG; pfam01124 208963013029 thioredoxin reductase; Provisional; Region: PRK10262 208963013030 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963013031 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963013032 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 208963013033 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 208963013034 dimer interface [polypeptide binding]; other site 208963013035 decamer (pentamer of dimers) interface [polypeptide binding]; other site 208963013036 catalytic triad [active] 208963013037 peroxidatic and resolving cysteines [active] 208963013038 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 208963013039 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 208963013040 dimerization interface [polypeptide binding]; other site 208963013041 PAS domain S-box; Region: sensory_box; TIGR00229 208963013042 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 208963013043 putative active site [active] 208963013044 heme pocket [chemical binding]; other site 208963013045 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963013046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963013047 metal binding site [ion binding]; metal-binding site 208963013048 active site 208963013049 I-site; other site 208963013050 putative sulfate transport protein CysZ; Validated; Region: PRK04949 208963013051 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; pfam04734 208963013052 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 208963013053 Phosphoesterase family; Region: Phosphoesterase; pfam04185 208963013054 Domain of unknown function (DUF756); Region: DUF756; pfam05506 208963013055 Domain of unknown function (DUF756); Region: DUF756; pfam05506 208963013056 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 208963013057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963013058 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 208963013059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 208963013060 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 208963013061 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963013062 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 208963013063 putative active site [active] 208963013064 putative FMN binding site [chemical binding]; other site 208963013065 putative substrate binding site [chemical binding]; other site 208963013066 putative catalytic residue [active] 208963013067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963013068 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963013069 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 208963013070 catalytic residues [active] 208963013071 dimer interface [polypeptide binding]; other site 208963013072 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 208963013073 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 208963013074 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 208963013075 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 208963013076 propionate/acetate kinase; Provisional; Region: PRK12379 208963013077 phosphate acetyltransferase; Reviewed; Region: PRK05632 208963013078 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 208963013079 DRTGG domain; Region: DRTGG; pfam07085 208963013080 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 208963013081 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 208963013082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 208963013083 putative acyl-acceptor binding pocket; other site 208963013084 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963013085 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963013086 ligand binding site [chemical binding]; other site 208963013087 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 208963013088 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963013089 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963013090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013091 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 208963013092 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 208963013093 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963013094 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 208963013095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963013096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963013097 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 208963013098 active site 208963013099 DNA binding site [nucleotide binding] 208963013100 Int/Topo IB signature motif; other site 208963013101 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 208963013102 Uncharacterized conserved protein [Function unknown]; Region: COG4104 208963013103 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 208963013104 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 208963013105 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 208963013106 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 208963013107 active site 208963013108 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 208963013109 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963013110 putative metal binding site [ion binding]; other site 208963013111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963013112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963013113 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 208963013114 putative dimerization interface [polypeptide binding]; other site 208963013115 cell density-dependent motility repressor; Provisional; Region: PRK10082 208963013116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963013117 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 208963013118 dimerization interface [polypeptide binding]; other site 208963013119 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 208963013120 homotrimer interaction site [polypeptide binding]; other site 208963013121 putative active site [active] 208963013122 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 208963013123 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 208963013124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963013125 catalytic residue [active] 208963013126 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 208963013127 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963013128 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963013129 putative substrate translocation pore; other site 208963013130 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 208963013131 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 208963013132 motif II; other site 208963013133 manganese transport protein MntH; Reviewed; Region: PRK00701 208963013134 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 208963013135 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 208963013136 putative hydrophobic ligand binding site [chemical binding]; other site 208963013137 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 208963013138 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 208963013139 amidase catalytic site [active] 208963013140 Zn binding residues [ion binding]; other site 208963013141 substrate binding site [chemical binding]; other site 208963013142 Predicted membrane protein [Function unknown]; Region: COG4270 208963013143 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 208963013144 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963013145 active site 208963013146 catalytic tetrad [active] 208963013147 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 208963013148 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963013149 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 208963013150 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 208963013151 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 208963013152 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 208963013153 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 208963013154 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 208963013155 ATP binding site [chemical binding]; other site 208963013156 putative Mg++ binding site [ion binding]; other site 208963013157 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 208963013158 nucleotide binding region [chemical binding]; other site 208963013159 ATP-binding site [chemical binding]; other site 208963013160 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963013161 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 208963013162 S-adenosylmethionine binding site [chemical binding]; other site 208963013163 Transcriptional regulators [Transcription]; Region: GntR; COG1802 208963013164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963013165 DNA-binding site [nucleotide binding]; DNA binding site 208963013166 FCD domain; Region: FCD; pfam07729 208963013167 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 208963013168 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 208963013169 tetramer interface [polypeptide binding]; other site 208963013170 active site 208963013171 Mg2+/Mn2+ binding site [ion binding]; other site 208963013172 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 208963013173 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 208963013174 dimer interface [polypeptide binding]; other site 208963013175 active site 208963013176 citrylCoA binding site [chemical binding]; other site 208963013177 oxalacetate/citrate binding site [chemical binding]; other site 208963013178 coenzyme A binding site [chemical binding]; other site 208963013179 catalytic triad [active] 208963013180 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 208963013181 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 208963013182 substrate binding site [chemical binding]; other site 208963013183 ligand binding site [chemical binding]; other site 208963013184 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 208963013185 substrate binding site [chemical binding]; other site 208963013186 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 208963013187 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 208963013188 2-methylcitrate dehydratase; Region: prpD; TIGR02330 208963013189 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963013190 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963013191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013192 Predicted permeases [General function prediction only]; Region: COG0730 208963013193 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 208963013194 Spore germination protein; Region: Spore_permease; cl17796 208963013195 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963013196 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 208963013197 S-adenosylmethionine binding site [chemical binding]; other site 208963013198 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 208963013199 Transglycosylase; Region: Transgly; cl17702 208963013200 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 208963013201 Predicted ATPase [General function prediction only]; Region: COG4637 208963013202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963013203 Walker A/P-loop; other site 208963013204 ATP binding site [chemical binding]; other site 208963013205 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 208963013206 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 208963013207 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963013208 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963013209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963013210 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 208963013211 dimerization interface [polypeptide binding]; other site 208963013212 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 208963013213 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 208963013214 Na binding site [ion binding]; other site 208963013215 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 208963013216 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 208963013217 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 208963013218 Glutamate binding site [chemical binding]; other site 208963013219 NAD binding site [chemical binding]; other site 208963013220 catalytic residues [active] 208963013221 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 208963013222 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 208963013223 N-terminal plug; other site 208963013224 ligand-binding site [chemical binding]; other site 208963013225 Cupin domain; Region: Cupin_2; cl17218 208963013226 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963013227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013229 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 208963013230 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 208963013231 Walker A motif; other site 208963013232 ATP binding site [chemical binding]; other site 208963013233 Walker B motif; other site 208963013234 arginine finger; other site 208963013235 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 208963013236 Predicted secreted protein [Function unknown]; Region: COG5513 208963013237 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 208963013238 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 208963013239 membrane-bound complex binding site; other site 208963013240 hinge residues; other site 208963013241 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 208963013242 S-adenosylmethionine binding site [chemical binding]; other site 208963013243 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963013244 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 208963013245 S-adenosylmethionine binding site [chemical binding]; other site 208963013246 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 208963013247 active site 208963013248 hydrophilic channel; other site 208963013249 dimerization interface [polypeptide binding]; other site 208963013250 catalytic residues [active] 208963013251 active site lid [active] 208963013252 Recombination protein O N terminal; Region: RecO_N; pfam11967 208963013253 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 208963013254 Recombination protein O C terminal; Region: RecO_C; pfam02565 208963013255 GTPase Era; Reviewed; Region: era; PRK00089 208963013256 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 208963013257 G1 box; other site 208963013258 GTP/Mg2+ binding site [chemical binding]; other site 208963013259 Switch I region; other site 208963013260 G2 box; other site 208963013261 Switch II region; other site 208963013262 G3 box; other site 208963013263 G4 box; other site 208963013264 G5 box; other site 208963013265 KH domain; Region: KH_2; pfam07650 208963013266 ribonuclease III; Reviewed; Region: rnc; PRK00102 208963013267 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 208963013268 dimerization interface [polypeptide binding]; other site 208963013269 active site 208963013270 metal binding site [ion binding]; metal-binding site 208963013271 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 208963013272 dsRNA binding site [nucleotide binding]; other site 208963013273 signal peptidase I; Provisional; Region: PRK10861 208963013274 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 208963013275 Catalytic site [active] 208963013276 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 208963013277 GTP-binding protein LepA; Provisional; Region: PRK05433 208963013278 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 208963013279 G1 box; other site 208963013280 putative GEF interaction site [polypeptide binding]; other site 208963013281 GTP/Mg2+ binding site [chemical binding]; other site 208963013282 Switch I region; other site 208963013283 G2 box; other site 208963013284 G3 box; other site 208963013285 Switch II region; other site 208963013286 G4 box; other site 208963013287 G5 box; other site 208963013288 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 208963013289 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 208963013290 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 208963013291 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 208963013292 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 208963013293 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 208963013294 protein binding site [polypeptide binding]; other site 208963013295 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 208963013296 protein binding site [polypeptide binding]; other site 208963013297 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 208963013298 MucB/RseB family; Region: MucB_RseB; pfam03888 208963013299 anti-sigma E factor; Provisional; Region: rseB; PRK09455 208963013300 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 208963013301 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 208963013302 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 208963013303 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 208963013304 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963013305 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 208963013306 DNA binding residues [nucleotide binding] 208963013307 L-aspartate oxidase; Provisional; Region: PRK09077 208963013308 L-aspartate oxidase; Provisional; Region: PRK06175 208963013309 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 208963013310 Uncharacterized conserved protein [Function unknown]; Region: COG2938 208963013311 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 208963013312 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 208963013313 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 208963013314 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 208963013315 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963013316 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 208963013317 dimer interface [polypeptide binding]; other site 208963013318 phosphorylation site [posttranslational modification] 208963013319 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963013320 ATP binding site [chemical binding]; other site 208963013321 G-X-G motif; other site 208963013322 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 208963013323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963013324 active site 208963013325 phosphorylation site [posttranslational modification] 208963013326 intermolecular recognition site; other site 208963013327 dimerization interface [polypeptide binding]; other site 208963013328 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 208963013329 DNA binding site [nucleotide binding] 208963013330 outer membrane porin, OprD family; Region: OprD; pfam03573 208963013331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 208963013332 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 208963013333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 208963013334 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 208963013335 Putative ammonia monooxygenase; Region: AmoA; pfam05145 208963013336 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 208963013337 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 208963013338 ligand binding site [chemical binding]; other site 208963013339 active site 208963013340 UGI interface [polypeptide binding]; other site 208963013341 catalytic site [active] 208963013342 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 208963013343 VanW like protein; Region: VanW; pfam04294 208963013344 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963013345 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963013346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013348 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 208963013349 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 208963013350 tetrameric interface [polypeptide binding]; other site 208963013351 NAD binding site [chemical binding]; other site 208963013352 catalytic residues [active] 208963013353 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963013354 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 208963013355 substrate binding pocket [chemical binding]; other site 208963013356 FAD binding site [chemical binding]; other site 208963013357 catalytic base [active] 208963013358 enoyl-CoA hydratase; Provisional; Region: PRK09076 208963013359 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 208963013360 substrate binding site [chemical binding]; other site 208963013361 oxyanion hole (OAH) forming residues; other site 208963013362 trimer interface [polypeptide binding]; other site 208963013363 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 208963013364 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 208963013365 substrate binding site [chemical binding]; other site 208963013366 oxyanion hole (OAH) forming residues; other site 208963013367 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 208963013368 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 208963013369 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 208963013370 Ion channel; Region: Ion_trans_2; pfam07885 208963013371 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 208963013372 NADH(P)-binding; Region: NAD_binding_10; pfam13460 208963013373 NAD binding site [chemical binding]; other site 208963013374 substrate binding site [chemical binding]; other site 208963013375 putative active site [active] 208963013376 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 208963013377 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 208963013378 SCP-2 sterol transfer family; Region: SCP2; pfam02036 208963013379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963013380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963013381 LysR substrate binding domain; Region: LysR_substrate; pfam03466 208963013382 dimerization interface [polypeptide binding]; other site 208963013383 Predicted membrane protein [Function unknown]; Region: COG3776 208963013384 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 208963013385 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 208963013386 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 208963013387 RNA binding surface [nucleotide binding]; other site 208963013388 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 208963013389 active site 208963013390 uracil binding [chemical binding]; other site 208963013391 hypothetical protein; Provisional; Region: PRK06132 208963013392 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 208963013393 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 208963013394 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963013395 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 208963013396 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 208963013397 MPN+ (JAMM) motif; other site 208963013398 Zinc-binding site [ion binding]; other site 208963013399 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 208963013400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963013401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013402 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 208963013403 serine O-acetyltransferase; Region: cysE; TIGR01172 208963013404 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 208963013405 trimer interface [polypeptide binding]; other site 208963013406 active site 208963013407 substrate binding site [chemical binding]; other site 208963013408 CoA binding site [chemical binding]; other site 208963013409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963013410 NAD(P) binding site [chemical binding]; other site 208963013411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963013412 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 208963013413 NAD(P) binding site [chemical binding]; other site 208963013414 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 208963013415 Condensation domain; Region: Condensation; pfam00668 208963013416 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963013417 Nonribosomal peptide synthase; Region: NRPS; pfam08415 208963013418 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 208963013419 acyl-activating enzyme (AAE) consensus motif; other site 208963013420 AMP binding site [chemical binding]; other site 208963013421 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963013422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963013423 NAD(P) binding site [chemical binding]; other site 208963013424 active site 208963013425 Phosphopantetheine attachment site; Region: PP-binding; cl09936 208963013426 Condensation domain; Region: Condensation; pfam00668 208963013427 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 208963013428 Nonribosomal peptide synthase; Region: NRPS; pfam08415 208963013429 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 208963013430 acyl-activating enzyme (AAE) consensus motif; other site 208963013431 AMP binding site [chemical binding]; other site 208963013432 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 208963013433 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 208963013434 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 208963013435 acyl-activating enzyme (AAE) consensus motif; other site 208963013436 active site 208963013437 substrate binding site [chemical binding]; other site 208963013438 AMP binding site [chemical binding]; other site 208963013439 salicylate synthase; Region: salicyl_syn; TIGR03494 208963013440 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 208963013441 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 208963013442 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963013443 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 208963013444 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 208963013445 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963013446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963013447 Walker A/P-loop; other site 208963013448 ATP binding site [chemical binding]; other site 208963013449 Q-loop/lid; other site 208963013450 ABC transporter signature motif; other site 208963013451 Walker B; other site 208963013452 D-loop; other site 208963013453 H-loop/switch region; other site 208963013454 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 208963013455 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963013456 Walker A/P-loop; other site 208963013457 ATP binding site [chemical binding]; other site 208963013458 Q-loop/lid; other site 208963013459 ABC transporter signature motif; other site 208963013460 Walker B; other site 208963013461 D-loop; other site 208963013462 H-loop/switch region; other site 208963013463 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 208963013464 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 208963013465 intersubunit interface [polypeptide binding]; other site 208963013466 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 208963013467 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 208963013468 ABC-ATPase subunit interface; other site 208963013469 dimer interface [polypeptide binding]; other site 208963013470 putative PBP binding regions; other site 208963013471 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 208963013472 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 208963013473 ABC-ATPase subunit interface; other site 208963013474 dimer interface [polypeptide binding]; other site 208963013475 putative PBP binding regions; other site 208963013476 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 208963013477 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 208963013478 Walker A/P-loop; other site 208963013479 ATP binding site [chemical binding]; other site 208963013480 Q-loop/lid; other site 208963013481 ABC transporter signature motif; other site 208963013482 Walker B; other site 208963013483 D-loop; other site 208963013484 H-loop/switch region; other site 208963013485 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963013486 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 208963013487 N-terminal plug; other site 208963013488 ligand-binding site [chemical binding]; other site 208963013489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 208963013490 HTH-like domain; Region: HTH_21; pfam13276 208963013491 Integrase core domain; Region: rve; pfam00665 208963013492 Integrase core domain; Region: rve_3; pfam13683 208963013493 Transposase; Region: HTH_Tnp_1; pfam01527 208963013494 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 208963013495 Integrase core domain; Region: rve; pfam00665 208963013496 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 208963013497 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 208963013498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963013499 Coenzyme A binding pocket [chemical binding]; other site 208963013500 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963013501 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 208963013502 dimer interface [polypeptide binding]; other site 208963013503 active site 208963013504 metal binding site [ion binding]; metal-binding site 208963013505 glutathione binding site [chemical binding]; other site 208963013506 Uncharacterized conserved protein [Function unknown]; Region: COG1359 208963013507 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963013508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963013509 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 208963013510 dimerization interface [polypeptide binding]; other site 208963013511 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 208963013512 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 208963013513 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 208963013514 trimer interface [polypeptide binding]; other site 208963013515 active site 208963013516 substrate binding site [chemical binding]; other site 208963013517 CoA binding site [chemical binding]; other site 208963013518 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 208963013519 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 208963013520 active site 208963013521 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 208963013522 amidase; Provisional; Region: PRK07042 208963013523 Amidase; Region: Amidase; pfam01425 208963013524 citrate-proton symporter; Provisional; Region: PRK15075 208963013525 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963013526 putative substrate translocation pore; other site 208963013527 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 208963013528 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 208963013529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963013530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963013531 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 208963013532 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 208963013533 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 208963013534 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 208963013535 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 208963013536 Gram-negative bacterial tonB protein; Region: TonB; cl10048 208963013537 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 208963013538 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 208963013539 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 208963013540 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 208963013541 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 208963013542 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 208963013543 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 208963013544 Surface antigen; Region: Bac_surface_Ag; pfam01103 208963013545 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 208963013546 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 208963013547 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 208963013548 PBP superfamily domain; Region: PBP_like_2; cl17296 208963013549 type II secretion system protein F; Region: GspF; TIGR02120 208963013550 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963013551 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963013552 type II secretion system protein E; Region: type_II_gspE; TIGR02533 208963013553 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 208963013554 Walker A motif; other site 208963013555 ATP binding site [chemical binding]; other site 208963013556 Walker B motif; other site 208963013557 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963013558 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963013559 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963013560 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 208963013561 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963013562 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 208963013563 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 208963013564 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 208963013565 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 208963013566 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 208963013567 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 208963013568 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 208963013569 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 208963013570 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 208963013571 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 208963013572 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 208963013573 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 208963013574 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 208963013575 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963013576 FecR protein; Region: FecR; pfam04773 208963013577 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 208963013578 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 208963013579 DNA binding residues [nucleotide binding] 208963013580 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963013581 TonB C terminal; Region: TonB_2; pfam13103 208963013582 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 208963013583 heme binding pocket [chemical binding]; other site 208963013584 heme ligand [chemical binding]; other site 208963013585 Cell division inhibitor SulA; Region: SulA; cl01880 208963013586 DNA Polymerase Y-family; Region: PolY_like; cd03468 208963013587 active site 208963013588 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 208963013589 DNA binding site [nucleotide binding] 208963013590 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 208963013591 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 208963013592 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 208963013593 putative active site [active] 208963013594 putative PHP Thumb interface [polypeptide binding]; other site 208963013595 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 208963013596 generic binding surface II; other site 208963013597 generic binding surface I; other site 208963013598 exonuclease subunit SbcD; Provisional; Region: PRK10966 208963013599 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 208963013600 active site 208963013601 metal binding site [ion binding]; metal-binding site 208963013602 DNA binding site [nucleotide binding] 208963013603 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 208963013604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963013605 AAA domain; Region: AAA_23; pfam13476 208963013606 Walker A/P-loop; other site 208963013607 ATP binding site [chemical binding]; other site 208963013608 Q-loop/lid; other site 208963013609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963013610 ABC transporter signature motif; other site 208963013611 Walker B; other site 208963013612 D-loop; other site 208963013613 H-loop/switch region; other site 208963013614 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 208963013615 AAA domain; Region: AAA_30; pfam13604 208963013616 Family description; Region: UvrD_C_2; pfam13538 208963013617 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 208963013618 Family description; Region: UvrD_C_2; pfam13538 208963013619 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 208963013620 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 208963013621 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 208963013622 EamA-like transporter family; Region: EamA; pfam00892 208963013623 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963013624 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963013625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963013626 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 208963013627 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 208963013628 Chromate transporter; Region: Chromate_transp; pfam02417 208963013629 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963013630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963013631 dimer interface [polypeptide binding]; other site 208963013632 putative CheW interface [polypeptide binding]; other site 208963013633 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 208963013634 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 208963013635 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 208963013636 PAS fold; Region: PAS_3; pfam08447 208963013637 putative active site [active] 208963013638 heme pocket [chemical binding]; other site 208963013639 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 208963013640 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963013641 putative active site [active] 208963013642 heme pocket [chemical binding]; other site 208963013643 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 208963013644 dimer interface [polypeptide binding]; other site 208963013645 phosphorylation site [posttranslational modification] 208963013646 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963013647 ATP binding site [chemical binding]; other site 208963013648 Mg2+ binding site [ion binding]; other site 208963013649 G-X-G motif; other site 208963013650 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 208963013651 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 208963013652 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963013653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963013654 active site 208963013655 phosphorylation site [posttranslational modification] 208963013656 intermolecular recognition site; other site 208963013657 dimerization interface [polypeptide binding]; other site 208963013658 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 208963013659 DNA binding residues [nucleotide binding] 208963013660 dimerization interface [polypeptide binding]; other site 208963013661 Predicted membrane protein [Function unknown]; Region: COG4655 208963013662 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 208963013663 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 208963013664 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 208963013665 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963013666 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 208963013667 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963013668 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 208963013669 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 208963013670 ATP binding site [chemical binding]; other site 208963013671 Walker A motif; other site 208963013672 hexamer interface [polypeptide binding]; other site 208963013673 Walker B motif; other site 208963013674 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 208963013675 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 208963013676 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 208963013677 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 208963013678 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963013679 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 208963013680 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 208963013681 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 208963013682 Cache domain; Region: Cache_1; pfam02743 208963013683 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 208963013684 dimerization interface [polypeptide binding]; other site 208963013685 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963013686 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963013687 dimer interface [polypeptide binding]; other site 208963013688 putative CheW interface [polypeptide binding]; other site 208963013689 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 208963013690 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 208963013691 Cache domain; Region: Cache_1; pfam02743 208963013692 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 208963013693 dimerization interface [polypeptide binding]; other site 208963013694 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963013695 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963013696 dimer interface [polypeptide binding]; other site 208963013697 putative CheW interface [polypeptide binding]; other site 208963013698 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 208963013699 Cache domain; Region: Cache_1; pfam02743 208963013700 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 208963013701 dimerization interface [polypeptide binding]; other site 208963013702 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963013703 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963013704 dimer interface [polypeptide binding]; other site 208963013705 putative CheW interface [polypeptide binding]; other site 208963013706 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963013707 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 208963013708 Predicted deacetylase [General function prediction only]; Region: COG3233 208963013709 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 208963013710 putative active site [active] 208963013711 putative Zn binding site [ion binding]; other site 208963013712 Predicted integral membrane protein [Function unknown]; Region: COG0392 208963013713 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 208963013714 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 208963013715 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 208963013716 putative active site [active] 208963013717 putative substrate binding site [chemical binding]; other site 208963013718 putative cosubstrate binding site; other site 208963013719 catalytic site [active] 208963013720 exonuclease I; Provisional; Region: sbcB; PRK11779 208963013721 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 208963013722 active site 208963013723 catalytic site [active] 208963013724 substrate binding site [chemical binding]; other site 208963013725 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 208963013726 Protein of unknown function (DUF975); Region: DUF975; cl10504 208963013727 Predicted membrane protein/domain [Function unknown]; Region: COG1714 208963013728 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 208963013729 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 208963013730 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 208963013731 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 208963013732 Walker A motif; other site 208963013733 ATP binding site [chemical binding]; other site 208963013734 Walker B motif; other site 208963013735 arginine finger; other site 208963013736 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 208963013737 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 208963013738 metal ion-dependent adhesion site (MIDAS); other site 208963013739 PilZ domain; Region: PilZ; pfam07238 208963013740 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 208963013741 universal stress protein UspE; Provisional; Region: PRK11175 208963013742 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 208963013743 Ligand Binding Site [chemical binding]; other site 208963013744 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 208963013745 Ligand Binding Site [chemical binding]; other site 208963013746 pyruvate kinase; Provisional; Region: PRK05826 208963013747 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 208963013748 domain interfaces; other site 208963013749 active site 208963013750 enoyl-CoA hydratase; Provisional; Region: PRK06688 208963013751 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 208963013752 substrate binding site [chemical binding]; other site 208963013753 oxyanion hole (OAH) forming residues; other site 208963013754 trimer interface [polypeptide binding]; other site 208963013755 hypothetical protein; Provisional; Region: PRK05713 208963013756 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 208963013757 catalytic loop [active] 208963013758 iron binding site [ion binding]; other site 208963013759 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 208963013760 FAD binding pocket [chemical binding]; other site 208963013761 conserved FAD binding motif [chemical binding]; other site 208963013762 phosphate binding motif [ion binding]; other site 208963013763 beta-alpha-beta structure motif; other site 208963013764 NAD binding pocket [chemical binding]; other site 208963013765 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963013766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963013767 metal binding site [ion binding]; metal-binding site 208963013768 active site 208963013769 I-site; other site 208963013770 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 208963013771 Fumarase C-terminus; Region: Fumerase_C; pfam05683 208963013772 manganese transport protein MntH; Reviewed; Region: PRK00701 208963013773 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 208963013774 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 208963013775 intracellular protease, PfpI family; Region: PfpI; TIGR01382 208963013776 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 208963013777 conserved cys residue [active] 208963013778 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 208963013779 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 208963013780 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 208963013781 PLD-like domain; Region: PLDc_2; pfam13091 208963013782 putative active site [active] 208963013783 catalytic site [active] 208963013784 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 208963013785 PLD-like domain; Region: PLDc_2; pfam13091 208963013786 putative active site [active] 208963013787 catalytic site [active] 208963013788 YceI-like domain; Region: YceI; pfam04264 208963013789 Transcriptional regulator [Transcription]; Region: IclR; COG1414 208963013790 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 208963013791 amidase; Provisional; Region: PRK07486 208963013792 Amidase; Region: Amidase; pfam01425 208963013793 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963013794 metabolite-proton symporter; Region: 2A0106; TIGR00883 208963013795 putative substrate translocation pore; other site 208963013796 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 208963013797 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 208963013798 metal binding site [ion binding]; metal-binding site 208963013799 putative dimer interface [polypeptide binding]; other site 208963013800 YceI-like domain; Region: YceI; pfam04264 208963013801 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 208963013802 Beta-lactamase; Region: Beta-lactamase; pfam00144 208963013803 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 208963013804 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 208963013805 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963013806 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963013807 active site 208963013808 Putative hemolysin [General function prediction only]; Region: COG3176 208963013809 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 208963013810 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 208963013811 putative acyl-acceptor binding pocket; other site 208963013812 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 208963013813 Ligand Binding Site [chemical binding]; other site 208963013814 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 208963013815 Ligand Binding Site [chemical binding]; other site 208963013816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3124 208963013817 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 208963013818 dimerization interface [polypeptide binding]; other site 208963013819 putative DNA binding site [nucleotide binding]; other site 208963013820 putative Zn2+ binding site [ion binding]; other site 208963013821 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 208963013822 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963013823 putative substrate translocation pore; other site 208963013824 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963013825 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 208963013826 FMN binding site [chemical binding]; other site 208963013827 active site 208963013828 substrate binding site [chemical binding]; other site 208963013829 catalytic residue [active] 208963013830 FeoC like transcriptional regulator; Region: FeoC; cl17677 208963013831 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 208963013832 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 208963013833 G1 box; other site 208963013834 GTP/Mg2+ binding site [chemical binding]; other site 208963013835 Switch I region; other site 208963013836 G2 box; other site 208963013837 G3 box; other site 208963013838 Switch II region; other site 208963013839 G4 box; other site 208963013840 G5 box; other site 208963013841 Nucleoside recognition; Region: Gate; pfam07670 208963013842 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 208963013843 Nucleoside recognition; Region: Gate; pfam07670 208963013844 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 208963013845 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 208963013846 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 208963013847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963013848 NAD(P) binding site [chemical binding]; other site 208963013849 active site 208963013850 Uncharacterized conserved protein [Function unknown]; Region: COG3268 208963013851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963013852 NAD(P) binding site [chemical binding]; other site 208963013853 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 208963013854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963013855 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 208963013856 dimerization interface [polypeptide binding]; other site 208963013857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 208963013858 ACT domain; Region: ACT_3; pfam10000 208963013859 Lysine efflux permease [General function prediction only]; Region: COG1279 208963013860 superoxide dismutase; Provisional; Region: PRK10543 208963013861 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 208963013862 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 208963013863 biofilm formation regulator HmsP; Provisional; Region: PRK11829 208963013864 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963013865 metal binding site [ion binding]; metal-binding site 208963013866 active site 208963013867 I-site; other site 208963013868 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 208963013869 E3 Ubiquitin ligase; Region: GIDE; pfam12483 208963013870 LemA family; Region: LemA; pfam04011 208963013871 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 208963013872 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 208963013873 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 208963013874 Imelysin; Region: Peptidase_M75; cl09159 208963013875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 208963013876 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963013877 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963013878 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963013879 multidrug efflux protein; Reviewed; Region: PRK09579 208963013880 Protein export membrane protein; Region: SecD_SecF; cl14618 208963013881 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 208963013882 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 208963013883 active site 208963013884 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 208963013885 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 208963013886 S-adenosylmethionine binding site [chemical binding]; other site 208963013887 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963013888 HAMP domain; Region: HAMP; pfam00672 208963013889 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 208963013890 dimer interface [polypeptide binding]; other site 208963013891 phosphorylation site [posttranslational modification] 208963013892 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963013893 ATP binding site [chemical binding]; other site 208963013894 Mg2+ binding site [ion binding]; other site 208963013895 G-X-G motif; other site 208963013896 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963013897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963013898 active site 208963013899 phosphorylation site [posttranslational modification] 208963013900 intermolecular recognition site; other site 208963013901 dimerization interface [polypeptide binding]; other site 208963013902 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 208963013903 DNA binding site [nucleotide binding] 208963013904 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 208963013905 active site 208963013906 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 208963013907 chromosome condensation membrane protein; Provisional; Region: PRK14196 208963013908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 208963013909 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 208963013910 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 208963013911 ring oligomerisation interface [polypeptide binding]; other site 208963013912 ATP/Mg binding site [chemical binding]; other site 208963013913 stacking interactions; other site 208963013914 hinge regions; other site 208963013915 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 208963013916 oligomerisation interface [polypeptide binding]; other site 208963013917 mobile loop; other site 208963013918 roof hairpin; other site 208963013919 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 208963013920 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 208963013921 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 208963013922 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 208963013923 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 208963013924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963013925 NAD(P) binding site [chemical binding]; other site 208963013926 active site 208963013927 Protein of unknown function, DUF481; Region: DUF481; pfam04338 208963013928 Protein of unknown function, DUF481; Region: DUF481; pfam04338 208963013929 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 208963013930 DNA binding site [nucleotide binding] 208963013931 active site 208963013932 AmpG-like permease; Region: 2A0125; TIGR00901 208963013933 muropeptide transporter; Validated; Region: ampG; cl17669 208963013934 mechanosensitive channel MscS; Provisional; Region: PRK10334 208963013935 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963013936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 208963013937 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 208963013938 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963013939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963013940 active site 208963013941 phosphorylation site [posttranslational modification] 208963013942 intermolecular recognition site; other site 208963013943 dimerization interface [polypeptide binding]; other site 208963013944 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 208963013945 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 208963013946 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 208963013947 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 208963013948 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 208963013949 dimerization interface [polypeptide binding]; other site 208963013950 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 208963013951 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 208963013952 putative active site [active] 208963013953 heme pocket [chemical binding]; other site 208963013954 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 208963013955 dimer interface [polypeptide binding]; other site 208963013956 phosphorylation site [posttranslational modification] 208963013957 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963013958 ATP binding site [chemical binding]; other site 208963013959 Mg2+ binding site [ion binding]; other site 208963013960 G-X-G motif; other site 208963013961 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 208963013962 hypothetical protein; Provisional; Region: PRK08999 208963013963 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 208963013964 active site 208963013965 8-oxo-dGMP binding site [chemical binding]; other site 208963013966 nudix motif; other site 208963013967 metal binding site [ion binding]; metal-binding site 208963013968 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 208963013969 thiamine phosphate binding site [chemical binding]; other site 208963013970 active site 208963013971 pyrophosphate binding site [ion binding]; other site 208963013972 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 208963013973 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 208963013974 putative C-terminal domain interface [polypeptide binding]; other site 208963013975 putative GSH binding site (G-site) [chemical binding]; other site 208963013976 putative dimer interface [polypeptide binding]; other site 208963013977 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 208963013978 putative N-terminal domain interface [polypeptide binding]; other site 208963013979 putative dimer interface [polypeptide binding]; other site 208963013980 putative substrate binding pocket (H-site) [chemical binding]; other site 208963013981 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 208963013982 heterotetramer interface [polypeptide binding]; other site 208963013983 active site pocket [active] 208963013984 cleavage site 208963013985 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 208963013986 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 208963013987 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 208963013988 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 208963013989 nucleotide binding region [chemical binding]; other site 208963013990 ATP-binding site [chemical binding]; other site 208963013991 SEC-C motif; Region: SEC-C; pfam02810 208963013992 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 208963013993 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963013994 Protein of unknown function (DUF721); Region: DUF721; cl02324 208963013995 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 208963013996 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 208963013997 cell division protein FtsZ; Validated; Region: PRK09330 208963013998 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 208963013999 nucleotide binding site [chemical binding]; other site 208963014000 SulA interaction site; other site 208963014001 cell division protein FtsA; Region: ftsA; TIGR01174 208963014002 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 208963014003 nucleotide binding site [chemical binding]; other site 208963014004 Cell division protein FtsA; Region: FtsA; pfam14450 208963014005 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 208963014006 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 208963014007 Cell division protein FtsQ; Region: FtsQ; pfam03799 208963014008 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 208963014009 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 208963014010 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963014011 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 208963014012 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 208963014013 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 208963014014 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 208963014015 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 208963014016 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 208963014017 active site 208963014018 homodimer interface [polypeptide binding]; other site 208963014019 cell division protein FtsW; Region: ftsW; TIGR02614 208963014020 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 208963014021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963014022 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 208963014023 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 208963014024 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 208963014025 Mg++ binding site [ion binding]; other site 208963014026 putative catalytic motif [active] 208963014027 putative substrate binding site [chemical binding]; other site 208963014028 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 208963014029 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 208963014030 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 208963014031 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 208963014032 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 208963014033 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 208963014034 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 208963014035 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 208963014036 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 208963014037 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 208963014038 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 208963014039 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 208963014040 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 208963014041 MraW methylase family; Region: Methyltransf_5; pfam01795 208963014042 cell division protein MraZ; Reviewed; Region: PRK00326 208963014043 MraZ protein; Region: MraZ; pfam02381 208963014044 MraZ protein; Region: MraZ; pfam02381 208963014045 Predicted methyltransferases [General function prediction only]; Region: COG0313 208963014046 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 208963014047 putative SAM binding site [chemical binding]; other site 208963014048 putative homodimer interface [polypeptide binding]; other site 208963014049 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 208963014050 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 208963014051 putative ligand binding site [chemical binding]; other site 208963014052 hypothetical protein; Reviewed; Region: PRK12497 208963014053 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 208963014054 dimer interface [polypeptide binding]; other site 208963014055 active site 208963014056 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 208963014057 BON domain; Region: BON; pfam04972 208963014058 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 208963014059 stringent starvation protein A; Provisional; Region: sspA; PRK09481 208963014060 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 208963014061 C-terminal domain interface [polypeptide binding]; other site 208963014062 putative GSH binding site (G-site) [chemical binding]; other site 208963014063 dimer interface [polypeptide binding]; other site 208963014064 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 208963014065 dimer interface [polypeptide binding]; other site 208963014066 N-terminal domain interface [polypeptide binding]; other site 208963014067 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 208963014068 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 208963014069 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 208963014070 Qi binding site; other site 208963014071 intrachain domain interface; other site 208963014072 interchain domain interface [polypeptide binding]; other site 208963014073 heme bH binding site [chemical binding]; other site 208963014074 heme bL binding site [chemical binding]; other site 208963014075 Qo binding site; other site 208963014076 interchain domain interface [polypeptide binding]; other site 208963014077 intrachain domain interface; other site 208963014078 Qi binding site; other site 208963014079 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 208963014080 Qo binding site; other site 208963014081 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 208963014082 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 208963014083 [2Fe-2S] cluster binding site [ion binding]; other site 208963014084 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 208963014085 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 208963014086 23S rRNA interface [nucleotide binding]; other site 208963014087 L3 interface [polypeptide binding]; other site 208963014088 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 208963014089 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963014090 active site 208963014091 catalytic tetrad [active] 208963014092 similar to acyl-CoA dehydrogenase; may contain frameshift 208963014093 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 208963014094 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 208963014095 conserved cys residue [active] 208963014096 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963014097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963014098 Predicted ATPase [General function prediction only]; Region: COG1485 208963014099 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 208963014100 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 208963014101 active site 208963014102 HIGH motif; other site 208963014103 dimer interface [polypeptide binding]; other site 208963014104 KMSKS motif; other site 208963014105 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 208963014106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 208963014107 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 208963014108 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 208963014109 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 208963014110 CysD dimerization site [polypeptide binding]; other site 208963014111 G1 box; other site 208963014112 putative GEF interaction site [polypeptide binding]; other site 208963014113 GTP/Mg2+ binding site [chemical binding]; other site 208963014114 Switch I region; other site 208963014115 G2 box; other site 208963014116 G3 box; other site 208963014117 Switch II region; other site 208963014118 G4 box; other site 208963014119 G5 box; other site 208963014120 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 208963014121 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 208963014122 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 208963014123 ligand-binding site [chemical binding]; other site 208963014124 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 208963014125 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 208963014126 Active Sites [active] 208963014127 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 208963014128 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 208963014129 N-acetyl-D-glucosamine binding site [chemical binding]; other site 208963014130 catalytic residue [active] 208963014131 Uncharacterized conserved protein [Function unknown]; Region: COG0327 208963014132 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 208963014133 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 208963014134 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 208963014135 protein binding site [polypeptide binding]; other site 208963014136 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 208963014137 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 208963014138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963014139 homodimer interface [polypeptide binding]; other site 208963014140 catalytic residue [active] 208963014141 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 208963014142 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 208963014143 NAD binding site [chemical binding]; other site 208963014144 dimerization interface [polypeptide binding]; other site 208963014145 product binding site; other site 208963014146 substrate binding site [chemical binding]; other site 208963014147 zinc binding site [ion binding]; other site 208963014148 catalytic residues [active] 208963014149 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 208963014150 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 208963014151 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 208963014152 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 208963014153 hinge; other site 208963014154 active site 208963014155 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 208963014156 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 208963014157 anti sigma factor interaction site; other site 208963014158 regulatory phosphorylation site [posttranslational modification]; other site 208963014159 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 208963014160 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 208963014161 mce related protein; Region: MCE; pfam02470 208963014162 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 208963014163 conserved hypothetical integral membrane protein; Region: TIGR00056 208963014164 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 208963014165 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 208963014166 Walker A/P-loop; other site 208963014167 ATP binding site [chemical binding]; other site 208963014168 Q-loop/lid; other site 208963014169 ABC transporter signature motif; other site 208963014170 Walker B; other site 208963014171 D-loop; other site 208963014172 H-loop/switch region; other site 208963014173 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 208963014174 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 208963014175 putative active site [active] 208963014176 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 208963014177 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 208963014178 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 208963014179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 208963014180 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 208963014181 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 208963014182 OstA-like protein; Region: OstA; pfam03968 208963014183 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 208963014184 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 208963014185 Walker A/P-loop; other site 208963014186 ATP binding site [chemical binding]; other site 208963014187 Q-loop/lid; other site 208963014188 ABC transporter signature motif; other site 208963014189 Walker B; other site 208963014190 D-loop; other site 208963014191 H-loop/switch region; other site 208963014192 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 208963014193 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 208963014194 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 208963014195 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 208963014196 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 208963014197 30S subunit binding site; other site 208963014198 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 208963014199 active site 208963014200 phosphorylation site [posttranslational modification] 208963014201 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 208963014202 AAA domain; Region: AAA_18; pfam13238 208963014203 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 208963014204 dimerization domain swap beta strand [polypeptide binding]; other site 208963014205 regulatory protein interface [polypeptide binding]; other site 208963014206 active site 208963014207 regulatory phosphorylation site [posttranslational modification]; other site 208963014208 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 208963014209 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 208963014210 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 208963014211 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 208963014212 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 208963014213 fumarate hydratase; Reviewed; Region: fumC; PRK00485 208963014214 Class II fumarases; Region: Fumarase_classII; cd01362 208963014215 active site 208963014216 tetramer interface [polypeptide binding]; other site 208963014217 peptidase PmbA; Provisional; Region: PRK11040 208963014218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 208963014219 protease TldD; Provisional; Region: tldD; PRK10735 208963014220 nitrilase; Region: PLN02798 208963014221 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 208963014222 putative active site [active] 208963014223 catalytic triad [active] 208963014224 dimer interface [polypeptide binding]; other site 208963014225 Predicted membrane protein [Function unknown]; Region: COG3164 208963014226 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 208963014227 ribonuclease G; Provisional; Region: PRK11712 208963014228 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 208963014229 homodimer interface [polypeptide binding]; other site 208963014230 oligonucleotide binding site [chemical binding]; other site 208963014231 Maf-like protein; Region: Maf; pfam02545 208963014232 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 208963014233 active site 208963014234 dimer interface [polypeptide binding]; other site 208963014235 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 208963014236 rod shape-determining protein MreC; Provisional; Region: PRK13922 208963014237 rod shape-determining protein MreC; Region: MreC; pfam04085 208963014238 rod shape-determining protein MreB; Provisional; Region: PRK13927 208963014239 MreB and similar proteins; Region: MreB_like; cd10225 208963014240 nucleotide binding site [chemical binding]; other site 208963014241 Mg binding site [ion binding]; other site 208963014242 putative protofilament interaction site [polypeptide binding]; other site 208963014243 RodZ interaction site [polypeptide binding]; other site 208963014244 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 208963014245 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 208963014246 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 208963014247 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 208963014248 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 208963014249 GatB domain; Region: GatB_Yqey; smart00845 208963014250 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 208963014251 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 208963014252 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 208963014253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 208963014254 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cl17565 208963014255 putative metal binding site [ion binding]; other site 208963014256 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 208963014257 Predicted secreted protein [Function unknown]; Region: COG5445 208963014258 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 208963014259 Predicted secreted protein [Function unknown]; Region: COG5445 208963014260 Stage II sporulation protein; Region: SpoIID; pfam08486 208963014261 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 208963014262 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 208963014263 MG2 domain; Region: A2M_N; pfam01835 208963014264 Alpha-2-macroglobulin family; Region: A2M; pfam00207 208963014265 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 208963014266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 208963014267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 208963014268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 208963014269 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 208963014270 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 208963014271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963014272 active site 208963014273 phosphorylation site [posttranslational modification] 208963014274 intermolecular recognition site; other site 208963014275 dimerization interface [polypeptide binding]; other site 208963014276 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963014277 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963014278 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 208963014279 phosphorylation site [posttranslational modification] 208963014280 dimer interface [polypeptide binding]; other site 208963014281 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 208963014282 ATP binding site [chemical binding]; other site 208963014283 G-X-G motif; other site 208963014284 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 208963014285 Uncharacterized conserved protein [Function unknown]; Region: COG2968 208963014286 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 208963014287 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 208963014288 peptide binding site [polypeptide binding]; other site 208963014289 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 208963014290 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 208963014291 peptide binding site [polypeptide binding]; other site 208963014292 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 208963014293 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 208963014294 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 208963014295 active site 208963014296 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 208963014297 non-specific DNA binding site [nucleotide binding]; other site 208963014298 salt bridge; other site 208963014299 sequence-specific DNA binding site [nucleotide binding]; other site 208963014300 Cupin domain; Region: Cupin_2; pfam07883 208963014301 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 208963014302 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 208963014303 peptide binding site [polypeptide binding]; other site 208963014304 outer membrane porin, OprD family; Region: OprD; pfam03573 208963014305 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 208963014306 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 208963014307 peptide binding site [polypeptide binding]; other site 208963014308 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 208963014309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963014310 dimer interface [polypeptide binding]; other site 208963014311 conserved gate region; other site 208963014312 putative PBP binding loops; other site 208963014313 ABC-ATPase subunit interface; other site 208963014314 dipeptide transporter; Provisional; Region: PRK10913 208963014315 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 208963014316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963014317 putative PBP binding loops; other site 208963014318 dimer interface [polypeptide binding]; other site 208963014319 ABC-ATPase subunit interface; other site 208963014320 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 208963014321 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 208963014322 Walker A/P-loop; other site 208963014323 ATP binding site [chemical binding]; other site 208963014324 Q-loop/lid; other site 208963014325 ABC transporter signature motif; other site 208963014326 Walker B; other site 208963014327 D-loop; other site 208963014328 H-loop/switch region; other site 208963014329 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 208963014330 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 208963014331 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 208963014332 Walker A/P-loop; other site 208963014333 ATP binding site [chemical binding]; other site 208963014334 Q-loop/lid; other site 208963014335 ABC transporter signature motif; other site 208963014336 Walker B; other site 208963014337 D-loop; other site 208963014338 H-loop/switch region; other site 208963014339 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 208963014340 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963014341 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963014342 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 208963014343 putative DNA binding site [nucleotide binding]; other site 208963014344 putative Zn2+ binding site [ion binding]; other site 208963014345 AsnC family; Region: AsnC_trans_reg; pfam01037 208963014346 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 208963014347 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 208963014348 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 208963014349 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 208963014350 putative active site [active] 208963014351 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 208963014352 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 208963014353 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 208963014354 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 208963014355 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 208963014356 Flavodoxin; Region: Flavodoxin_1; pfam00258 208963014357 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 208963014358 FAD binding pocket [chemical binding]; other site 208963014359 FAD binding motif [chemical binding]; other site 208963014360 catalytic residues [active] 208963014361 NAD binding pocket [chemical binding]; other site 208963014362 phosphate binding motif [ion binding]; other site 208963014363 beta-alpha-beta structure motif; other site 208963014364 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 208963014365 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 208963014366 N-terminal plug; other site 208963014367 ligand-binding site [chemical binding]; other site 208963014368 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 208963014369 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963014370 Sel1-like repeats; Region: SEL1; smart00671 208963014371 Sel1-like repeats; Region: SEL1; smart00671 208963014372 hypothetical protein; Provisional; Region: PRK10649 208963014373 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 208963014374 Sulfatase; Region: Sulfatase; pfam00884 208963014375 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 208963014376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963014377 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 208963014378 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 208963014379 dimer interface [polypeptide binding]; other site 208963014380 active site 208963014381 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 208963014382 catalytic residues [active] 208963014383 substrate binding site [chemical binding]; other site 208963014384 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 208963014385 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 208963014386 dimerization interface [polypeptide binding]; other site 208963014387 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963014388 dimer interface [polypeptide binding]; other site 208963014389 putative CheW interface [polypeptide binding]; other site 208963014390 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 208963014391 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 208963014392 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 208963014393 amidase catalytic site [active] 208963014394 Zn binding residues [ion binding]; other site 208963014395 substrate binding site [chemical binding]; other site 208963014396 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 208963014397 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 208963014398 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 208963014399 dimerization interface [polypeptide binding]; other site 208963014400 active site 208963014401 Pilin (bacterial filament); Region: Pilin; pfam00114 208963014402 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 208963014403 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 208963014404 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 208963014405 Walker A motif; other site 208963014406 ATP binding site [chemical binding]; other site 208963014407 Walker B motif; other site 208963014408 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 208963014409 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963014410 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963014411 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 208963014412 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 208963014413 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 208963014414 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 208963014415 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 208963014416 CoA-binding site [chemical binding]; other site 208963014417 ATP-binding [chemical binding]; other site 208963014418 DNA gyrase inhibitor; Reviewed; Region: PRK00418 208963014419 Predicted membrane protein [Function unknown]; Region: COG3235 208963014420 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 208963014421 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 208963014422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963014423 Coenzyme A binding pocket [chemical binding]; other site 208963014424 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 208963014425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 208963014426 MOSC domain; Region: MOSC; pfam03473 208963014427 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 208963014428 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 208963014429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963014430 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 208963014431 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 208963014432 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 208963014433 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 208963014434 haemagglutination activity domain; Region: Haemagg_act; pfam05860 208963014435 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 208963014436 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 208963014437 P-loop; other site 208963014438 Magnesium ion binding site [ion binding]; other site 208963014439 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 208963014440 Magnesium ion binding site [ion binding]; other site 208963014441 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 208963014442 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 208963014443 HNH endonuclease; Region: HNH_3; pfam13392 208963014444 replicative DNA helicase; Region: DnaB; TIGR00665 208963014445 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 208963014446 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 208963014447 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 208963014448 Walker A motif; other site 208963014449 ATP binding site [chemical binding]; other site 208963014450 Walker B motif; other site 208963014451 DNA binding loops [nucleotide binding] 208963014452 Nucleoid-associated protein [General function prediction only]; Region: COG3081 208963014453 nucleoid-associated protein NdpA; Validated; Region: PRK00378 208963014454 Arc-like DNA binding domain; Region: Arc; pfam03869 208963014455 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 208963014456 ParB-like nuclease domain; Region: ParB; smart00470 208963014457 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 208963014458 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 208963014459 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 208963014460 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 208963014461 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 208963014462 dimer interface [polypeptide binding]; other site 208963014463 ssDNA binding site [nucleotide binding]; other site 208963014464 tetramer (dimer of dimers) interface [polypeptide binding]; other site 208963014465 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 208963014466 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 208963014467 active site 208963014468 interdomain interaction site; other site 208963014469 putative metal-binding site [ion binding]; other site 208963014470 nucleotide binding site [chemical binding]; other site 208963014471 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 208963014472 domain I; other site 208963014473 DNA binding groove [nucleotide binding] 208963014474 phosphate binding site [ion binding]; other site 208963014475 domain II; other site 208963014476 domain III; other site 208963014477 nucleotide binding site [chemical binding]; other site 208963014478 catalytic site [active] 208963014479 domain IV; other site 208963014480 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 208963014481 ATP binding site [chemical binding]; other site 208963014482 putative Mg++ binding site [ion binding]; other site 208963014483 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 208963014484 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 208963014485 nucleotide binding region [chemical binding]; other site 208963014486 ATP-binding site [chemical binding]; other site 208963014487 Colicin-like bacteriocin tRNase domain; Region: Cloacin; pfam03515 208963014488 Colicin pore forming domain; Region: Colicin; pfam01024 208963014489 Colicin E1 (microcin) immunity protein; Region: Microcin; pfam03526 208963014490 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 208963014491 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 208963014492 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 208963014493 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 208963014494 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963014495 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 208963014496 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 208963014497 Type II/IV secretion system protein; Region: T2SE; pfam00437 208963014498 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 208963014499 Walker A motif; other site 208963014500 ATP binding site [chemical binding]; other site 208963014501 Walker B motif; other site 208963014502 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963014503 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 208963014504 PilS N terminal; Region: PilS; pfam08805 208963014505 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 208963014506 Walker A motif; other site 208963014507 ATP binding site [chemical binding]; other site 208963014508 Walker B motif; other site 208963014509 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 208963014510 PilM; Region: PilM; pfam07419 208963014511 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 208963014512 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 208963014513 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 208963014514 S-adenosylmethionine binding site [chemical binding]; other site 208963014515 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 208963014516 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 208963014517 putative Mg++ binding site [ion binding]; other site 208963014518 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 208963014519 nucleotide binding region [chemical binding]; other site 208963014520 ATP-binding site [chemical binding]; other site 208963014521 Transposase; Region: HTH_Tnp_1; pfam01527 208963014522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 208963014523 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 208963014524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 208963014525 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 208963014526 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 208963014527 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 208963014528 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 208963014529 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 208963014530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 208963014531 Protein of unknown function (DUF3218); Region: DUF3218; pfam11508 208963014532 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 208963014533 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 208963014534 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 208963014535 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 208963014536 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 208963014537 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 208963014538 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 208963014539 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963014540 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 208963014541 Fimbrial protein; Region: Fimbrial; cl01416 208963014542 fimbrial assembly chaperone StbE; Provisional; Region: PRK15246 208963014543 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963014544 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 208963014545 transcriptional regulator RcsB; Provisional; Region: PRK10840 208963014546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963014547 active site 208963014548 phosphorylation site [posttranslational modification] 208963014549 intermolecular recognition site; other site 208963014550 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 208963014551 DNA binding residues [nucleotide binding] 208963014552 dimerization interface [polypeptide binding]; other site 208963014553 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 208963014554 dimer interface [polypeptide binding]; other site 208963014555 phosphorylation site [posttranslational modification] 208963014556 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963014557 ATP binding site [chemical binding]; other site 208963014558 Mg2+ binding site [ion binding]; other site 208963014559 G-X-G motif; other site 208963014560 Response regulator receiver domain; Region: Response_reg; pfam00072 208963014561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963014562 active site 208963014563 phosphorylation site [posttranslational modification] 208963014564 intermolecular recognition site; other site 208963014565 dimerization interface [polypeptide binding]; other site 208963014566 Hpt domain; Region: Hpt; pfam01627 208963014567 Response regulator receiver domain; Region: Response_reg; pfam00072 208963014568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963014569 active site 208963014570 phosphorylation site [posttranslational modification] 208963014571 intermolecular recognition site; other site 208963014572 dimerization interface [polypeptide binding]; other site 208963014573 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 208963014574 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 208963014575 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 208963014576 dimer interface [polypeptide binding]; other site 208963014577 phosphorylation site [posttranslational modification] 208963014578 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963014579 ATP binding site [chemical binding]; other site 208963014580 Mg2+ binding site [ion binding]; other site 208963014581 G-X-G motif; other site 208963014582 Response regulator receiver domain; Region: Response_reg; pfam00072 208963014583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963014584 active site 208963014585 phosphorylation site [posttranslational modification] 208963014586 intermolecular recognition site; other site 208963014587 dimerization interface [polypeptide binding]; other site 208963014588 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 208963014589 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 208963014590 Family description; Region: UvrD_C_2; pfam13538 208963014591 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 208963014592 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 208963014593 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 208963014594 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 208963014595 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 208963014596 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 208963014597 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 208963014598 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 208963014599 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 208963014600 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 208963014601 Protein of unknown function (DUF972); Region: DUF972; pfam06156 208963014602 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 208963014603 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 208963014604 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 208963014605 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 208963014606 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963014607 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 208963014608 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 208963014609 catalytic residues [active] 208963014610 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 208963014611 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 208963014612 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 208963014613 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 208963014614 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 208963014615 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 208963014616 AAA domain; Region: AAA_23; pfam13476 208963014617 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 208963014618 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 208963014619 putative active site [active] 208963014620 putative metal-binding site [ion binding]; other site 208963014621 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 208963014622 Part of AAA domain; Region: AAA_19; pfam13245 208963014623 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 208963014624 trimer interface [polypeptide binding]; other site 208963014625 active site 208963014626 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 208963014627 trimer interface [polypeptide binding]; other site 208963014628 active site 208963014629 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 208963014630 trimer interface [polypeptide binding]; other site 208963014631 active site 208963014632 Putative helicase; Region: TraI_2; pfam07514 208963014633 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 208963014634 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 208963014635 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 208963014636 DNA binding site [nucleotide binding] 208963014637 Int/Topo IB signature motif; other site 208963014638 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 208963014639 Clp amino terminal domain; Region: Clp_N; pfam02861 208963014640 Clp amino terminal domain; Region: Clp_N; pfam02861 208963014641 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 208963014642 Walker A motif; other site 208963014643 ATP binding site [chemical binding]; other site 208963014644 Walker B motif; other site 208963014645 arginine finger; other site 208963014646 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 208963014647 Walker A motif; other site 208963014648 ATP binding site [chemical binding]; other site 208963014649 Walker B motif; other site 208963014650 arginine finger; other site 208963014651 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 208963014652 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 208963014653 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 208963014654 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 208963014655 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 208963014656 RNA binding surface [nucleotide binding]; other site 208963014657 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 208963014658 active site 208963014659 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 208963014660 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 208963014661 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 208963014662 dimer interface [polypeptide binding]; other site 208963014663 phosphorylation site [posttranslational modification] 208963014664 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963014665 ATP binding site [chemical binding]; other site 208963014666 Mg2+ binding site [ion binding]; other site 208963014667 G-X-G motif; other site 208963014668 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963014669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963014670 active site 208963014671 phosphorylation site [posttranslational modification] 208963014672 intermolecular recognition site; other site 208963014673 dimerization interface [polypeptide binding]; other site 208963014674 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 208963014675 Walker A motif; other site 208963014676 ATP binding site [chemical binding]; other site 208963014677 Walker B motif; other site 208963014678 arginine finger; other site 208963014679 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963014680 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 208963014681 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 208963014682 Type II transport protein GspH; Region: GspH; pfam12019 208963014683 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 208963014684 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 208963014685 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 208963014686 PilX N-terminal; Region: PilX_N; pfam14341 208963014687 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 208963014688 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 208963014689 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 208963014690 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 208963014691 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 208963014692 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 208963014693 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 208963014694 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 208963014695 lipoprotein signal peptidase; Provisional; Region: PRK14787 208963014696 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 208963014697 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 208963014698 active site 208963014699 HIGH motif; other site 208963014700 nucleotide binding site [chemical binding]; other site 208963014701 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 208963014702 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 208963014703 active site 208963014704 KMSKS motif; other site 208963014705 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 208963014706 tRNA binding surface [nucleotide binding]; other site 208963014707 anticodon binding site; other site 208963014708 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 208963014709 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 208963014710 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 208963014711 active site 208963014712 Riboflavin kinase; Region: Flavokinase; pfam01687 208963014713 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 208963014714 MviN-like protein; Region: MVIN; pfam03023 208963014715 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 208963014716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 208963014717 CreA protein; Region: CreA; pfam05981 208963014718 gamma-glutamyl kinase; Provisional; Region: PRK05429 208963014719 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 208963014720 nucleotide binding site [chemical binding]; other site 208963014721 homotetrameric interface [polypeptide binding]; other site 208963014722 putative phosphate binding site [ion binding]; other site 208963014723 putative allosteric binding site; other site 208963014724 PUA domain; Region: PUA; pfam01472 208963014725 GTPase CgtA; Reviewed; Region: obgE; PRK12298 208963014726 GTP1/OBG; Region: GTP1_OBG; pfam01018 208963014727 Obg GTPase; Region: Obg; cd01898 208963014728 G1 box; other site 208963014729 GTP/Mg2+ binding site [chemical binding]; other site 208963014730 Switch I region; other site 208963014731 G2 box; other site 208963014732 G3 box; other site 208963014733 Switch II region; other site 208963014734 G4 box; other site 208963014735 G5 box; other site 208963014736 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 208963014737 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 208963014738 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 208963014739 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 208963014740 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 208963014741 substrate binding pocket [chemical binding]; other site 208963014742 chain length determination region; other site 208963014743 substrate-Mg2+ binding site; other site 208963014744 catalytic residues [active] 208963014745 aspartate-rich region 1; other site 208963014746 active site lid residues [active] 208963014747 aspartate-rich region 2; other site 208963014748 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963014749 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963014750 Cytochrome c; Region: Cytochrom_C; pfam00034 208963014751 Cytochrome c [Energy production and conversion]; Region: COG3258 208963014752 Cytochrome c; Region: Cytochrom_C; pfam00034 208963014753 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 208963014754 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 208963014755 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 208963014756 hypothetical protein; Provisional; Region: PRK05208 208963014757 methane monooxygenase/ammonia monooxygenase, subunit A; Region: CH4_NH3mon_ox_A; TIGR03080 208963014758 AAA domain; Region: AAA_32; pfam13654 208963014759 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 208963014760 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 208963014761 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 208963014762 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 208963014763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 208963014764 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 208963014765 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 208963014766 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 208963014767 Walker A motif; other site 208963014768 ATP binding site [chemical binding]; other site 208963014769 Walker B motif; other site 208963014770 arginine finger; other site 208963014771 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 208963014772 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 208963014773 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 208963014774 hypothetical protein; Reviewed; Region: PRK09588 208963014775 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 208963014776 active site 208963014777 NTP binding site [chemical binding]; other site 208963014778 metal binding triad [ion binding]; metal-binding site 208963014779 antibiotic binding site [chemical binding]; other site 208963014780 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 208963014781 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 208963014782 putative active site [active] 208963014783 adenylation catalytic residue [active] 208963014784 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 208963014785 glutamate dehydrogenase; Provisional; Region: PRK09414 208963014786 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 208963014787 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 208963014788 NAD(P) binding site [chemical binding]; other site 208963014789 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 208963014790 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 208963014791 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963014792 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963014793 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 208963014794 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 208963014795 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 208963014796 FtsX-like permease family; Region: FtsX; pfam02687 208963014797 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 208963014798 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 208963014799 Walker A/P-loop; other site 208963014800 ATP binding site [chemical binding]; other site 208963014801 Q-loop/lid; other site 208963014802 ABC transporter signature motif; other site 208963014803 Walker B; other site 208963014804 D-loop; other site 208963014805 H-loop/switch region; other site 208963014806 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 208963014807 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963014808 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963014809 ABC transporter; Region: ABC_tran_2; pfam12848 208963014810 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963014811 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963014812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963014813 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 208963014814 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 208963014815 Protein export membrane protein; Region: SecD_SecF; cl14618 208963014816 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 208963014817 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963014818 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963014819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963014820 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 208963014821 PAS domain; Region: PAS_9; pfam13426 208963014822 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 208963014823 PAS fold; Region: PAS_3; pfam08447 208963014824 putative active site [active] 208963014825 heme pocket [chemical binding]; other site 208963014826 PAS domain; Region: PAS_9; pfam13426 208963014827 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 208963014828 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 208963014829 PAS domain; Region: PAS_9; pfam13426 208963014830 putative active site [active] 208963014831 heme pocket [chemical binding]; other site 208963014832 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963014833 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963014834 metal binding site [ion binding]; metal-binding site 208963014835 active site 208963014836 I-site; other site 208963014837 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 208963014838 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 208963014839 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 208963014840 dimer interface [polypeptide binding]; other site 208963014841 active site 208963014842 glycine-pyridoxal phosphate binding site [chemical binding]; other site 208963014843 folate binding site [chemical binding]; other site 208963014844 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 208963014845 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 208963014846 P-loop, Walker A motif; other site 208963014847 Base recognition motif; other site 208963014848 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 208963014849 Uncharacterized small protein [Function unknown]; Region: COG2879 208963014850 carbon starvation protein A; Provisional; Region: PRK15015 208963014851 Carbon starvation protein CstA; Region: CstA; pfam02554 208963014852 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 208963014853 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 208963014854 PilZ domain; Region: PilZ; pfam07238 208963014855 DNA repair protein RadA; Provisional; Region: PRK11823 208963014856 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 208963014857 Walker A motif/ATP binding site; other site 208963014858 ATP binding site [chemical binding]; other site 208963014859 Walker B motif; other site 208963014860 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 208963014861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 208963014862 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 208963014863 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 208963014864 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 208963014865 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 208963014866 tetramer interface [polypeptide binding]; other site 208963014867 heme binding pocket [chemical binding]; other site 208963014868 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 208963014869 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 208963014870 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 208963014871 ferredoxin-NADP reductase; Provisional; Region: PRK10926 208963014872 FAD binding pocket [chemical binding]; other site 208963014873 FAD binding motif [chemical binding]; other site 208963014874 phosphate binding motif [ion binding]; other site 208963014875 beta-alpha-beta structure motif; other site 208963014876 NAD binding pocket [chemical binding]; other site 208963014877 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 208963014878 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 208963014879 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 208963014880 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 208963014881 S-adenosylmethionine binding site [chemical binding]; other site 208963014882 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 208963014883 Ligand binding site; other site 208963014884 metal-binding site 208963014885 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 208963014886 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 208963014887 XdhC Rossmann domain; Region: XdhC_C; pfam13478 208963014888 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963014889 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963014890 Cytochrome c; Region: Cytochrom_C; pfam00034 208963014891 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 208963014892 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 208963014893 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 208963014894 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963014895 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 208963014896 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 208963014897 H+ Antiporter protein; Region: 2A0121; TIGR00900 208963014898 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 208963014899 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 208963014900 haemagglutination activity domain; Region: Haemagg_act; pfam05860 208963014901 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 208963014902 glycerate dehydrogenase; Provisional; Region: PRK06487 208963014903 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 208963014904 putative ligand binding site [chemical binding]; other site 208963014905 putative NAD binding site [chemical binding]; other site 208963014906 catalytic site [active] 208963014907 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 208963014908 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 208963014909 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 208963014910 S-adenosylmethionine binding site [chemical binding]; other site 208963014911 lysine transporter; Provisional; Region: PRK10836 208963014912 Predicted membrane protein [Function unknown]; Region: COG2119 208963014913 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 208963014914 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 208963014915 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 208963014916 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 208963014917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963014918 NAD(P) binding site [chemical binding]; other site 208963014919 active site 208963014920 Peptidase family M48; Region: Peptidase_M48; pfam01435 208963014921 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 208963014922 dimerization interface [polypeptide binding]; other site 208963014923 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963014924 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963014925 dimer interface [polypeptide binding]; other site 208963014926 putative CheW interface [polypeptide binding]; other site 208963014927 Uncharacterized conserved protein [Function unknown]; Region: COG2135 208963014928 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 208963014929 MgtC family; Region: MgtC; pfam02308 208963014930 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 208963014931 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 208963014932 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 208963014933 putative acyl-acceptor binding pocket; other site 208963014934 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 208963014935 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 208963014936 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 208963014937 dimer interface [polypeptide binding]; other site 208963014938 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963014939 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 208963014940 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963014941 active site 208963014942 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963014943 active site 208963014944 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 208963014945 Uncharacterized secreted protein [Function unknown]; Region: COG5430 208963014946 Uncharacterized secreted protein [Function unknown]; Region: COG5430 208963014947 Uncharacterized secreted protein [Function unknown]; Region: COG5430 208963014948 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 208963014949 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 208963014950 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 208963014951 PapC N-terminal domain; Region: PapC_N; pfam13954 208963014952 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 208963014953 PapC C-terminal domain; Region: PapC_C; pfam13953 208963014954 Spore Coat Protein U domain; Region: SCPU; pfam05229 208963014955 Uncharacterized secreted protein [Function unknown]; Region: COG5430 208963014956 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963014957 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963014958 putative substrate translocation pore; other site 208963014959 ferrochelatase; Reviewed; Region: hemH; PRK00035 208963014960 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 208963014961 C-terminal domain interface [polypeptide binding]; other site 208963014962 active site 208963014963 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 208963014964 active site 208963014965 N-terminal domain interface [polypeptide binding]; other site 208963014966 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 208963014967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963014968 NAD(P) binding site [chemical binding]; other site 208963014969 active site 208963014970 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 208963014971 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963014972 Protein of unknown function (DUF523); Region: DUF523; pfam04463 208963014973 Uncharacterized conserved protein [Function unknown]; Region: COG3272 208963014974 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 208963014975 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 208963014976 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 208963014977 DNA binding residues [nucleotide binding] 208963014978 B12 binding domain; Region: B12-binding_2; pfam02607 208963014979 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 208963014980 DNA photolyase; Region: DNA_photolyase; pfam00875 208963014981 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 208963014982 glutamate racemase; Provisional; Region: PRK00865 208963014983 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 208963014984 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 208963014985 ATP binding site [chemical binding]; other site 208963014986 substrate interface [chemical binding]; other site 208963014987 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 208963014988 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 208963014989 peptide chain release factor 1; Validated; Region: prfA; PRK00591 208963014990 This domain is found in peptide chain release factors; Region: PCRF; smart00937 208963014991 RF-1 domain; Region: RF-1; pfam00472 208963014992 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 208963014993 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 208963014994 tRNA; other site 208963014995 putative tRNA binding site [nucleotide binding]; other site 208963014996 putative NADP binding site [chemical binding]; other site 208963014997 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 208963014998 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 208963014999 TPR motif; other site 208963015000 binding surface 208963015001 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 208963015002 binding surface 208963015003 TPR motif; other site 208963015004 Tetratricopeptide repeat; Region: TPR_16; pfam13432 208963015005 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 208963015006 binding surface 208963015007 TPR motif; other site 208963015008 Tetratricopeptide repeat; Region: TPR_12; pfam13424 208963015009 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 208963015010 binding surface 208963015011 TPR motif; other site 208963015012 Tetratricopeptide repeat; Region: TPR_16; pfam13432 208963015013 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 208963015014 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 208963015015 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 208963015016 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 208963015017 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 208963015018 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963015019 active site 208963015020 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 208963015021 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 208963015022 5S rRNA interface [nucleotide binding]; other site 208963015023 CTC domain interface [polypeptide binding]; other site 208963015024 L16 interface [polypeptide binding]; other site 208963015025 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 208963015026 metal binding site [ion binding]; metal-binding site 208963015027 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 208963015028 putative active site [active] 208963015029 catalytic residue [active] 208963015030 GTP-binding protein YchF; Reviewed; Region: PRK09601 208963015031 YchF GTPase; Region: YchF; cd01900 208963015032 G1 box; other site 208963015033 GTP/Mg2+ binding site [chemical binding]; other site 208963015034 Switch I region; other site 208963015035 G2 box; other site 208963015036 Switch II region; other site 208963015037 G3 box; other site 208963015038 G4 box; other site 208963015039 G5 box; other site 208963015040 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 208963015041 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 208963015042 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 208963015043 non-specific DNA binding site [nucleotide binding]; other site 208963015044 salt bridge; other site 208963015045 sequence-specific DNA binding site [nucleotide binding]; other site 208963015046 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 208963015047 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 208963015048 N-terminal plug; other site 208963015049 ligand-binding site [chemical binding]; other site 208963015050 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 208963015051 active site clefts [active] 208963015052 zinc binding site [ion binding]; other site 208963015053 dimer interface [polypeptide binding]; other site 208963015054 Peptidase family C69; Region: Peptidase_C69; cl17793 208963015055 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 208963015056 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963015057 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 208963015058 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 208963015059 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 208963015060 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 208963015061 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 208963015062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963015063 dimer interface [polypeptide binding]; other site 208963015064 conserved gate region; other site 208963015065 putative PBP binding loops; other site 208963015066 ABC-ATPase subunit interface; other site 208963015067 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963015068 dimer interface [polypeptide binding]; other site 208963015069 conserved gate region; other site 208963015070 putative PBP binding loops; other site 208963015071 ABC-ATPase subunit interface; other site 208963015072 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 208963015073 mce related protein; Region: MCE; pfam02470 208963015074 mce related protein; Region: MCE; pfam02470 208963015075 mce related protein; Region: MCE; pfam02470 208963015076 mce related protein; Region: MCE; pfam02470 208963015077 mce related protein; Region: MCE; pfam02470 208963015078 mce related protein; Region: MCE; pfam02470 208963015079 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 208963015080 Paraquat-inducible protein A; Region: PqiA; pfam04403 208963015081 Paraquat-inducible protein A; Region: PqiA; pfam04403 208963015082 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 208963015083 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 208963015084 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 208963015085 Moco binding site; other site 208963015086 metal coordination site [ion binding]; other site 208963015087 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 208963015088 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 208963015089 ketol-acid reductoisomerase; Provisional; Region: PRK05479 208963015090 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 208963015091 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 208963015092 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 208963015093 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 208963015094 putative valine binding site [chemical binding]; other site 208963015095 dimer interface [polypeptide binding]; other site 208963015096 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 208963015097 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 208963015098 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 208963015099 PYR/PP interface [polypeptide binding]; other site 208963015100 dimer interface [polypeptide binding]; other site 208963015101 TPP binding site [chemical binding]; other site 208963015102 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963015103 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 208963015104 TPP-binding site [chemical binding]; other site 208963015105 dimer interface [polypeptide binding]; other site 208963015106 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 208963015107 tRNA pseudouridine synthase C; Region: DUF446; cl01187 208963015108 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 208963015109 TPR motif; other site 208963015110 binding surface 208963015111 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 208963015112 Transglycosylase; Region: Transgly; pfam00912 208963015113 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 208963015114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 208963015115 Predicted kinase [General function prediction only]; Region: COG0645 208963015116 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 208963015117 ATP-binding site [chemical binding]; other site 208963015118 Gluconate-6-phosphate binding site [chemical binding]; other site 208963015119 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 208963015120 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 208963015121 TfoX C-terminal domain; Region: TfoX_C; pfam04994 208963015122 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 208963015123 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 208963015124 ligand binding site [chemical binding]; other site 208963015125 flexible hinge region; other site 208963015126 Uncharacterized iron-regulated protein [Function unknown]; Region: PhuW; COG3016 208963015127 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 208963015128 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 208963015129 Walker A/P-loop; other site 208963015130 ATP binding site [chemical binding]; other site 208963015131 Q-loop/lid; other site 208963015132 ABC transporter signature motif; other site 208963015133 Walker B; other site 208963015134 D-loop; other site 208963015135 H-loop/switch region; other site 208963015136 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 208963015137 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 208963015138 ABC-ATPase subunit interface; other site 208963015139 dimer interface [polypeptide binding]; other site 208963015140 putative PBP binding regions; other site 208963015141 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 208963015142 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 208963015143 putative hemin binding site; other site 208963015144 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 208963015145 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 208963015146 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 208963015147 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 208963015148 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 208963015149 N-terminal plug; other site 208963015150 ligand-binding site [chemical binding]; other site 208963015151 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 208963015152 iron-sulfur cluster [ion binding]; other site 208963015153 [2Fe-2S] cluster binding site [ion binding]; other site 208963015154 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 208963015155 Predicted metal-binding protein [General function prediction only]; Region: COG3019 208963015156 aminotransferase; Validated; Region: PRK08175 208963015157 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 208963015158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963015159 homodimer interface [polypeptide binding]; other site 208963015160 catalytic residue [active] 208963015161 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 208963015162 Predicted metalloprotease [General function prediction only]; Region: COG2321 208963015163 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 208963015164 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 208963015165 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 208963015166 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 208963015167 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 208963015168 hypothetical protein; Provisional; Region: PRK08960 208963015169 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 208963015170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963015171 homodimer interface [polypeptide binding]; other site 208963015172 catalytic residue [active] 208963015173 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 208963015174 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 208963015175 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 208963015176 active site 208963015177 HIGH motif; other site 208963015178 nucleotide binding site [chemical binding]; other site 208963015179 KMSKS motif; other site 208963015180 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 208963015181 Na binding site [ion binding]; other site 208963015182 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 208963015183 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 208963015184 putative active site [active] 208963015185 heme pocket [chemical binding]; other site 208963015186 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 208963015187 dimer interface [polypeptide binding]; other site 208963015188 phosphorylation site [posttranslational modification] 208963015189 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963015190 ATP binding site [chemical binding]; other site 208963015191 Mg2+ binding site [ion binding]; other site 208963015192 G-X-G motif; other site 208963015193 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963015194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963015195 active site 208963015196 phosphorylation site [posttranslational modification] 208963015197 intermolecular recognition site; other site 208963015198 dimerization interface [polypeptide binding]; other site 208963015199 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 208963015200 Walker A motif; other site 208963015201 ATP binding site [chemical binding]; other site 208963015202 Walker B motif; other site 208963015203 arginine finger; other site 208963015204 poly(A) polymerase; Region: pcnB; TIGR01942 208963015205 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 208963015206 active site 208963015207 NTP binding site [chemical binding]; other site 208963015208 metal binding triad [ion binding]; metal-binding site 208963015209 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 208963015210 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 208963015211 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 208963015212 catalytic center binding site [active] 208963015213 ATP binding site [chemical binding]; other site 208963015214 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 208963015215 oligomerization interface [polypeptide binding]; other site 208963015216 active site 208963015217 metal binding site [ion binding]; metal-binding site 208963015218 Pantoate-beta-alanine ligase; Region: PanC; cd00560 208963015219 pantoate--beta-alanine ligase; Region: panC; TIGR00018 208963015220 active site 208963015221 ATP-binding site [chemical binding]; other site 208963015222 pantoate-binding site; other site 208963015223 HXXH motif; other site 208963015224 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 208963015225 tetramerization interface [polypeptide binding]; other site 208963015226 active site 208963015227 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 208963015228 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 208963015229 active site 208963015230 dimer interface [polypeptide binding]; other site 208963015231 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 208963015232 dimer interface [polypeptide binding]; other site 208963015233 active site 208963015234 acetyl-CoA synthetase; Provisional; Region: PRK00174 208963015235 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 208963015236 active site 208963015237 CoA binding site [chemical binding]; other site 208963015238 acyl-activating enzyme (AAE) consensus motif; other site 208963015239 AMP binding site [chemical binding]; other site 208963015240 acetate binding site [chemical binding]; other site 208963015241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 208963015242 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 208963015243 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 208963015244 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 208963015245 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 208963015246 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 208963015247 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 208963015248 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 208963015249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 208963015250 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 208963015251 BON domain; Region: BON; pfam04972 208963015252 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 208963015253 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 208963015254 RNase E interface [polypeptide binding]; other site 208963015255 trimer interface [polypeptide binding]; other site 208963015256 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 208963015257 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 208963015258 RNase E interface [polypeptide binding]; other site 208963015259 trimer interface [polypeptide binding]; other site 208963015260 active site 208963015261 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 208963015262 putative nucleic acid binding region [nucleotide binding]; other site 208963015263 G-X-X-G motif; other site 208963015264 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 208963015265 RNA binding site [nucleotide binding]; other site 208963015266 domain interface; other site 208963015267 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 208963015268 16S/18S rRNA binding site [nucleotide binding]; other site 208963015269 S13e-L30e interaction site [polypeptide binding]; other site 208963015270 25S rRNA binding site [nucleotide binding]; other site 208963015271 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 208963015272 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 208963015273 RNA binding site [nucleotide binding]; other site 208963015274 active site 208963015275 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 208963015276 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 208963015277 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 208963015278 translation initiation factor IF-2; Region: IF-2; TIGR00487 208963015279 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 208963015280 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 208963015281 G1 box; other site 208963015282 putative GEF interaction site [polypeptide binding]; other site 208963015283 GTP/Mg2+ binding site [chemical binding]; other site 208963015284 Switch I region; other site 208963015285 G2 box; other site 208963015286 G3 box; other site 208963015287 Switch II region; other site 208963015288 G4 box; other site 208963015289 G5 box; other site 208963015290 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 208963015291 Translation-initiation factor 2; Region: IF-2; pfam11987 208963015292 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 208963015293 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 208963015294 NusA N-terminal domain; Region: NusA_N; pfam08529 208963015295 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 208963015296 RNA binding site [nucleotide binding]; other site 208963015297 homodimer interface [polypeptide binding]; other site 208963015298 NusA-like KH domain; Region: KH_5; pfam13184 208963015299 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 208963015300 G-X-X-G motif; other site 208963015301 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 208963015302 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 208963015303 ribosome maturation protein RimP; Reviewed; Region: PRK00092 208963015304 Sm and related proteins; Region: Sm_like; cl00259 208963015305 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 208963015306 putative oligomer interface [polypeptide binding]; other site 208963015307 putative RNA binding site [nucleotide binding]; other site 208963015308 Preprotein translocase SecG subunit; Region: SecG; pfam03840 208963015309 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 208963015310 triosephosphate isomerase; Provisional; Region: PRK14567 208963015311 substrate binding site [chemical binding]; other site 208963015312 dimer interface [polypeptide binding]; other site 208963015313 catalytic triad [active] 208963015314 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 208963015315 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 208963015316 active site 208963015317 substrate binding site [chemical binding]; other site 208963015318 metal binding site [ion binding]; metal-binding site 208963015319 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 208963015320 dihydropteroate synthase; Region: DHPS; TIGR01496 208963015321 substrate binding pocket [chemical binding]; other site 208963015322 dimer interface [polypeptide binding]; other site 208963015323 inhibitor binding site; inhibition site 208963015324 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 208963015325 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 208963015326 Walker A motif; other site 208963015327 ATP binding site [chemical binding]; other site 208963015328 Walker B motif; other site 208963015329 arginine finger; other site 208963015330 Peptidase family M41; Region: Peptidase_M41; pfam01434 208963015331 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 208963015332 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 208963015333 S-adenosylmethionine binding site [chemical binding]; other site 208963015334 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 208963015335 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 208963015336 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 208963015337 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 208963015338 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 208963015339 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963015340 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 208963015341 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 208963015342 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963015343 ATP-grasp domain; Region: ATP-grasp_4; cl17255 208963015344 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 208963015345 IMP binding site; other site 208963015346 dimer interface [polypeptide binding]; other site 208963015347 interdomain contacts; other site 208963015348 partial ornithine binding site; other site 208963015349 leucine export protein LeuE; Provisional; Region: PRK10958 208963015350 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 208963015351 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 208963015352 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 208963015353 catalytic site [active] 208963015354 subunit interface [polypeptide binding]; other site 208963015355 dihydrodipicolinate reductase; Provisional; Region: PRK00048 208963015356 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 208963015357 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 208963015358 chaperone protein DnaJ; Provisional; Region: PRK10767 208963015359 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 208963015360 HSP70 interaction site [polypeptide binding]; other site 208963015361 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 208963015362 substrate binding site [polypeptide binding]; other site 208963015363 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 208963015364 Zn binding sites [ion binding]; other site 208963015365 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 208963015366 dimer interface [polypeptide binding]; other site 208963015367 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 208963015368 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 208963015369 nucleotide binding site [chemical binding]; other site 208963015370 GrpE; Region: GrpE; pfam01025 208963015371 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 208963015372 dimer interface [polypeptide binding]; other site 208963015373 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 208963015374 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 208963015375 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 208963015376 Walker A/P-loop; other site 208963015377 ATP binding site [chemical binding]; other site 208963015378 Q-loop/lid; other site 208963015379 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 208963015380 ABC transporter signature motif; other site 208963015381 Walker B; other site 208963015382 D-loop; other site 208963015383 H-loop/switch region; other site 208963015384 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 208963015385 metal binding site 2 [ion binding]; metal-binding site 208963015386 putative DNA binding helix; other site 208963015387 metal binding site 1 [ion binding]; metal-binding site 208963015388 dimer interface [polypeptide binding]; other site 208963015389 structural Zn2+ binding site [ion binding]; other site 208963015390 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 208963015391 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 208963015392 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 208963015393 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 208963015394 putative coenzyme Q binding site [chemical binding]; other site 208963015395 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 208963015396 SmpB-tmRNA interface; other site 208963015397 Transcriptional regulators [Transcription]; Region: FadR; COG2186 208963015398 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963015399 DNA-binding site [nucleotide binding]; DNA binding site 208963015400 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 208963015401 glycolate transporter; Provisional; Region: PRK09695 208963015402 L-lactate permease; Region: Lactate_perm; cl00701 208963015403 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 208963015404 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 208963015405 phosphate binding site [ion binding]; other site 208963015406 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 208963015407 FAD binding domain; Region: FAD_binding_4; pfam01565 208963015408 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 208963015409 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 208963015410 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 208963015411 Cysteine-rich domain; Region: CCG; pfam02754 208963015412 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 208963015413 spermidine synthase; Provisional; Region: PRK00811 208963015414 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 208963015415 S-adenosylmethionine binding site [chemical binding]; other site 208963015416 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 208963015417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963015418 active site 208963015419 phosphorylation site [posttranslational modification] 208963015420 intermolecular recognition site; other site 208963015421 dimerization interface [polypeptide binding]; other site 208963015422 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 208963015423 DNA binding site [nucleotide binding] 208963015424 sensor protein QseC; Provisional; Region: PRK10337 208963015425 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 208963015426 dimer interface [polypeptide binding]; other site 208963015427 phosphorylation site [posttranslational modification] 208963015428 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963015429 ATP binding site [chemical binding]; other site 208963015430 Mg2+ binding site [ion binding]; other site 208963015431 G-X-G motif; other site 208963015432 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 208963015433 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 208963015434 DNA binding residues [nucleotide binding] 208963015435 dimer interface [polypeptide binding]; other site 208963015436 copper binding site [ion binding]; other site 208963015437 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 208963015438 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 208963015439 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 208963015440 ATP binding site [chemical binding]; other site 208963015441 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 208963015442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963015443 active site 208963015444 phosphorylation site [posttranslational modification] 208963015445 intermolecular recognition site; other site 208963015446 dimerization interface [polypeptide binding]; other site 208963015447 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963015448 Zn2+ binding site [ion binding]; other site 208963015449 Mg2+ binding site [ion binding]; other site 208963015450 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 208963015451 EamA-like transporter family; Region: EamA; pfam00892 208963015452 EamA-like transporter family; Region: EamA; pfam00892 208963015453 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963015454 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 208963015455 putative DNA binding site [nucleotide binding]; other site 208963015456 putative Zn2+ binding site [ion binding]; other site 208963015457 AsnC family; Region: AsnC_trans_reg; pfam01037 208963015458 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 208963015459 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 208963015460 dimer interface [polypeptide binding]; other site 208963015461 active site 208963015462 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 208963015463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963015464 NAD(P) binding site [chemical binding]; other site 208963015465 active site 208963015466 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963015467 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963015468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963015469 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 208963015470 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 208963015471 active site 2 [active] 208963015472 active site 1 [active] 208963015473 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 208963015474 homodimer interface [polypeptide binding]; other site 208963015475 chemical substrate binding site [chemical binding]; other site 208963015476 oligomer interface [polypeptide binding]; other site 208963015477 metal binding site [ion binding]; metal-binding site 208963015478 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 208963015479 S-adenosylmethionine binding site [chemical binding]; other site 208963015480 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 208963015481 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 208963015482 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 208963015483 putative active site [active] 208963015484 catalytic site [active] 208963015485 putative metal binding site [ion binding]; other site 208963015486 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 208963015487 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963015488 Coenzyme A binding pocket [chemical binding]; other site 208963015489 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 208963015490 glycine cleavage system protein H; Provisional; Region: PRK13380 208963015491 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 208963015492 lipoyl attachment site [posttranslational modification]; other site 208963015493 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 208963015494 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 208963015495 AAA domain; Region: AAA_17; pfam13207 208963015496 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 208963015497 S-adenosylmethionine binding site [chemical binding]; other site 208963015498 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 208963015499 DNA binding site [nucleotide binding] 208963015500 Int/Topo IB signature motif; other site 208963015501 active site 208963015502 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 208963015503 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 208963015504 S-adenosylmethionine binding site [chemical binding]; other site 208963015505 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 208963015506 hypothetical protein; Provisional; Region: PRK07036 208963015507 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 208963015508 inhibitor-cofactor binding pocket; inhibition site 208963015509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963015510 catalytic residue [active] 208963015511 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 208963015512 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 208963015513 DNA binding residues [nucleotide binding] 208963015514 dimerization interface [polypeptide binding]; other site 208963015515 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 208963015516 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 208963015517 G1 box; other site 208963015518 putative GEF interaction site [polypeptide binding]; other site 208963015519 GTP/Mg2+ binding site [chemical binding]; other site 208963015520 Switch I region; other site 208963015521 G2 box; other site 208963015522 G3 box; other site 208963015523 Switch II region; other site 208963015524 G4 box; other site 208963015525 G5 box; other site 208963015526 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 208963015527 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 208963015528 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 208963015529 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 208963015530 selenocysteine synthase; Provisional; Region: PRK04311 208963015531 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 208963015532 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963015533 catalytic residue [active] 208963015534 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 208963015535 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 208963015536 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 208963015537 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 208963015538 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 208963015539 4Fe-4S binding domain; Region: Fer4; cl02805 208963015540 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 208963015541 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 208963015542 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 208963015543 [4Fe-4S] binding site [ion binding]; other site 208963015544 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 208963015545 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 208963015546 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 208963015547 molybdopterin cofactor binding site; other site 208963015548 Lipase (class 2); Region: Lipase_2; pfam01674 208963015549 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 208963015550 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 208963015551 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 208963015552 active site 208963015553 FMN binding site [chemical binding]; other site 208963015554 2,4-decadienoyl-CoA binding site; other site 208963015555 catalytic residue [active] 208963015556 4Fe-4S cluster binding site [ion binding]; other site 208963015557 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 208963015558 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963015559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 208963015560 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 208963015561 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 208963015562 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 208963015563 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 208963015564 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 208963015565 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 208963015566 Ligand binding site; other site 208963015567 Putative Catalytic site; other site 208963015568 DXD motif; other site 208963015569 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 208963015570 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 208963015571 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 208963015572 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 208963015573 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 208963015574 PhoU domain; Region: PhoU; pfam01895 208963015575 magnesium-transporting ATPase; Provisional; Region: PRK15122 208963015576 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 208963015577 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 208963015578 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 208963015579 Soluble P-type ATPase [General function prediction only]; Region: COG4087 208963015580 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 208963015581 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 208963015582 Predicted membrane protein [Function unknown]; Region: COG3556 208963015583 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 208963015584 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 208963015585 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963015586 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 208963015587 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 208963015588 CoenzymeA binding site [chemical binding]; other site 208963015589 subunit interaction site [polypeptide binding]; other site 208963015590 PHB binding site; other site 208963015591 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963015592 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963015593 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 208963015594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963015595 NAD(P) binding site [chemical binding]; other site 208963015596 active site 208963015597 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 208963015598 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 208963015599 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 208963015600 EamA-like transporter family; Region: EamA; pfam00892 208963015601 EamA-like transporter family; Region: EamA; pfam00892 208963015602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 208963015603 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 208963015604 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963015605 Nicotianamine synthase protein; Region: NAS; cl17658 208963015606 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 208963015607 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 208963015608 N-terminal plug; other site 208963015609 ligand-binding site [chemical binding]; other site 208963015610 Predicted membrane protein [Function unknown]; Region: COG3503 208963015611 arginine decarboxylase; Provisional; Region: PRK05354 208963015612 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 208963015613 dimer interface [polypeptide binding]; other site 208963015614 active site 208963015615 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 208963015616 catalytic residues [active] 208963015617 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 208963015618 translation initiation factor Sui1; Validated; Region: PRK06824 208963015619 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 208963015620 putative rRNA binding site [nucleotide binding]; other site 208963015621 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 208963015622 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 208963015623 nudix motif; other site 208963015624 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 208963015625 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 208963015626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963015627 active site 208963015628 phosphorylation site [posttranslational modification] 208963015629 intermolecular recognition site; other site 208963015630 dimerization interface [polypeptide binding]; other site 208963015631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963015632 metal binding site [ion binding]; metal-binding site 208963015633 active site 208963015634 I-site; other site 208963015635 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963015636 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963015637 dimer interface [polypeptide binding]; other site 208963015638 putative CheW interface [polypeptide binding]; other site 208963015639 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 208963015640 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 208963015641 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 208963015642 DsbD alpha interface [polypeptide binding]; other site 208963015643 catalytic residues [active] 208963015644 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 208963015645 Dehydroquinase class II; Region: DHquinase_II; pfam01220 208963015646 active site 208963015647 trimer interface [polypeptide binding]; other site 208963015648 dimer interface [polypeptide binding]; other site 208963015649 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 208963015650 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 208963015651 carboxyltransferase (CT) interaction site; other site 208963015652 biotinylation site [posttranslational modification]; other site 208963015653 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 208963015654 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963015655 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 208963015656 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 208963015657 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 208963015658 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 208963015659 S-adenosylmethionine binding site [chemical binding]; other site 208963015660 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 208963015661 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 208963015662 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 208963015663 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 208963015664 FMN binding site [chemical binding]; other site 208963015665 active site 208963015666 catalytic residues [active] 208963015667 substrate binding site [chemical binding]; other site 208963015668 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 208963015669 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 208963015670 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 208963015671 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 208963015672 purine monophosphate binding site [chemical binding]; other site 208963015673 dimer interface [polypeptide binding]; other site 208963015674 putative catalytic residues [active] 208963015675 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 208963015676 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 208963015677 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 208963015678 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 208963015679 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 208963015680 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 208963015681 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 208963015682 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 208963015683 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 208963015684 dimer interface [polypeptide binding]; other site 208963015685 phosphorylation site [posttranslational modification] 208963015686 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963015687 ATP binding site [chemical binding]; other site 208963015688 Mg2+ binding site [ion binding]; other site 208963015689 G-X-G motif; other site 208963015690 Response regulator receiver domain; Region: Response_reg; pfam00072 208963015691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963015692 active site 208963015693 phosphorylation site [posttranslational modification] 208963015694 intermolecular recognition site; other site 208963015695 dimerization interface [polypeptide binding]; other site 208963015696 Response regulator receiver domain; Region: Response_reg; pfam00072 208963015697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963015698 active site 208963015699 phosphorylation site [posttranslational modification] 208963015700 intermolecular recognition site; other site 208963015701 dimerization interface [polypeptide binding]; other site 208963015702 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 208963015703 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 208963015704 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 208963015705 putative ligand binding site [chemical binding]; other site 208963015706 HEAT repeats; Region: HEAT_2; pfam13646 208963015707 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 208963015708 TM-ABC transporter signature motif; other site 208963015709 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 208963015710 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 208963015711 TM-ABC transporter signature motif; other site 208963015712 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 208963015713 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 208963015714 Walker A/P-loop; other site 208963015715 ATP binding site [chemical binding]; other site 208963015716 Q-loop/lid; other site 208963015717 ABC transporter signature motif; other site 208963015718 Walker B; other site 208963015719 D-loop; other site 208963015720 H-loop/switch region; other site 208963015721 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 208963015722 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 208963015723 Walker A/P-loop; other site 208963015724 ATP binding site [chemical binding]; other site 208963015725 Q-loop/lid; other site 208963015726 ABC transporter signature motif; other site 208963015727 Walker B; other site 208963015728 D-loop; other site 208963015729 H-loop/switch region; other site 208963015730 putative acetyltransferase; Provisional; Region: PRK03624 208963015731 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963015732 Coenzyme A binding pocket [chemical binding]; other site 208963015733 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 208963015734 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 208963015735 alpha-gamma subunit interface [polypeptide binding]; other site 208963015736 beta-gamma subunit interface [polypeptide binding]; other site 208963015737 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 208963015738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963015739 Coenzyme A binding pocket [chemical binding]; other site 208963015740 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 208963015741 gamma-beta subunit interface [polypeptide binding]; other site 208963015742 alpha-beta subunit interface [polypeptide binding]; other site 208963015743 urease subunit alpha; Reviewed; Region: ureC; PRK13207 208963015744 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 208963015745 subunit interactions [polypeptide binding]; other site 208963015746 active site 208963015747 flap region; other site 208963015748 hypothetical protein; Provisional; Region: PRK11019 208963015749 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 208963015750 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 208963015751 tetramer interface [polypeptide binding]; other site 208963015752 active site 208963015753 Mg2+/Mn2+ binding site [ion binding]; other site 208963015754 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 208963015755 putative chaperone; Provisional; Region: PRK11678 208963015756 nucleotide binding site [chemical binding]; other site 208963015757 putative NEF/HSP70 interaction site [polypeptide binding]; other site 208963015758 SBD interface [polypeptide binding]; other site 208963015759 psiF repeat; Region: PsiF_repeat; pfam07769 208963015760 psiF repeat; Region: PsiF_repeat; pfam07769 208963015761 psiF repeat; Region: PsiF_repeat; pfam07769 208963015762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 208963015763 MOSC domain; Region: MOSC; pfam03473 208963015764 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 208963015765 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 208963015766 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 208963015767 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 208963015768 DNA binding residues [nucleotide binding] 208963015769 drug binding residues [chemical binding]; other site 208963015770 dimer interface [polypeptide binding]; other site 208963015771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 208963015772 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 208963015773 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 208963015774 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 208963015775 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 208963015776 dinuclear metal binding motif [ion binding]; other site 208963015777 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 208963015778 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 208963015779 Moco binding site; other site 208963015780 metal coordination site [ion binding]; other site 208963015781 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 208963015782 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 208963015783 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 208963015784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963015785 active site 208963015786 phosphorylation site [posttranslational modification] 208963015787 intermolecular recognition site; other site 208963015788 dimerization interface [polypeptide binding]; other site 208963015789 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 208963015790 DNA binding site [nucleotide binding] 208963015791 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 208963015792 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 208963015793 dimerization interface [polypeptide binding]; other site 208963015794 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 208963015795 dimer interface [polypeptide binding]; other site 208963015796 phosphorylation site [posttranslational modification] 208963015797 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963015798 ATP binding site [chemical binding]; other site 208963015799 Mg2+ binding site [ion binding]; other site 208963015800 G-X-G motif; other site 208963015801 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963015802 putative MFS family transporter protein; Provisional; Region: PRK03633 208963015803 putative substrate translocation pore; other site 208963015804 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 208963015805 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 208963015806 putative di-iron ligands [ion binding]; other site 208963015807 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 208963015808 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 208963015809 FAD binding pocket [chemical binding]; other site 208963015810 FAD binding motif [chemical binding]; other site 208963015811 phosphate binding motif [ion binding]; other site 208963015812 beta-alpha-beta structure motif; other site 208963015813 NAD binding pocket [chemical binding]; other site 208963015814 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 208963015815 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 208963015816 catalytic loop [active] 208963015817 iron binding site [ion binding]; other site 208963015818 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 208963015819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963015820 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 208963015821 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 208963015822 dimer interface [polypeptide binding]; other site 208963015823 catalytic residues [active] 208963015824 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 208963015825 UreF; Region: UreF; pfam01730 208963015826 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 208963015827 G1 box; other site 208963015828 GTP/Mg2+ binding site [chemical binding]; other site 208963015829 G2 box; other site 208963015830 Switch I region; other site 208963015831 G3 box; other site 208963015832 Switch II region; other site 208963015833 G4 box; other site 208963015834 G5 box; other site 208963015835 HupE / UreJ protein; Region: HupE_UreJ; cl01011 208963015836 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 208963015837 FecR protein; Region: FecR; pfam04773 208963015838 RNA polymerase sigma factor; Provisional; Region: PRK12529 208963015839 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 208963015840 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 208963015841 DNA binding residues [nucleotide binding] 208963015842 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963015843 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 208963015844 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 208963015845 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 208963015846 outer membrane porin, OprD family; Region: OprD; pfam03573 208963015847 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 208963015848 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 208963015849 NAD(P) binding site [chemical binding]; other site 208963015850 catalytic residues [active] 208963015851 benzoate transport; Region: 2A0115; TIGR00895 208963015852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963015853 putative substrate translocation pore; other site 208963015854 benzoylformate decarboxylase; Reviewed; Region: PRK07092 208963015855 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 208963015856 PYR/PP interface [polypeptide binding]; other site 208963015857 dimer interface [polypeptide binding]; other site 208963015858 TPP binding site [chemical binding]; other site 208963015859 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963015860 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 208963015861 TPP-binding site [chemical binding]; other site 208963015862 dimer interface [polypeptide binding]; other site 208963015863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963015864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963015865 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 208963015866 substrate binding pocket [chemical binding]; other site 208963015867 dimerization interface [polypeptide binding]; other site 208963015868 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963015869 putative substrate translocation pore; other site 208963015870 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 208963015871 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 208963015872 iron-sulfur cluster [ion binding]; other site 208963015873 [2Fe-2S] cluster binding site [ion binding]; other site 208963015874 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 208963015875 alpha subunit interface [polypeptide binding]; other site 208963015876 active site 208963015877 substrate binding site [chemical binding]; other site 208963015878 Fe binding site [ion binding]; other site 208963015879 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 208963015880 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 208963015881 FMN-binding pocket [chemical binding]; other site 208963015882 flavin binding motif; other site 208963015883 phosphate binding motif [ion binding]; other site 208963015884 beta-alpha-beta structure motif; other site 208963015885 NAD binding pocket [chemical binding]; other site 208963015886 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 208963015887 catalytic loop [active] 208963015888 iron binding site [ion binding]; other site 208963015889 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963015890 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 208963015891 DNA-binding site [nucleotide binding]; DNA binding site 208963015892 FCD domain; Region: FCD; pfam07729 208963015893 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 208963015894 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 208963015895 putative NAD(P) binding site [chemical binding]; other site 208963015896 homodimer interface [polypeptide binding]; other site 208963015897 homotetramer interface [polypeptide binding]; other site 208963015898 active site 208963015899 ornithine cyclodeaminase; Validated; Region: PRK06141 208963015900 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 208963015901 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 208963015902 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 208963015903 Walker A/P-loop; other site 208963015904 ATP binding site [chemical binding]; other site 208963015905 Q-loop/lid; other site 208963015906 ABC transporter signature motif; other site 208963015907 Walker B; other site 208963015908 D-loop; other site 208963015909 H-loop/switch region; other site 208963015910 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 208963015911 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 208963015912 Walker A/P-loop; other site 208963015913 ATP binding site [chemical binding]; other site 208963015914 Q-loop/lid; other site 208963015915 ABC transporter signature motif; other site 208963015916 Walker B; other site 208963015917 D-loop; other site 208963015918 H-loop/switch region; other site 208963015919 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 208963015920 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 208963015921 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 208963015922 TM-ABC transporter signature motif; other site 208963015923 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 208963015924 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 208963015925 TM-ABC transporter signature motif; other site 208963015926 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 208963015927 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 208963015928 dimerization interface [polypeptide binding]; other site 208963015929 ligand binding site [chemical binding]; other site 208963015930 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963015931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963015932 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 208963015933 dimerization interface [polypeptide binding]; other site 208963015934 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 208963015935 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 208963015936 dimerization interface [polypeptide binding]; other site 208963015937 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 208963015938 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963015939 dimer interface [polypeptide binding]; other site 208963015940 putative CheW interface [polypeptide binding]; other site 208963015941 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 208963015942 nudix motif; other site 208963015943 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 208963015944 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 208963015945 active site 208963015946 nucleotide binding site [chemical binding]; other site 208963015947 HIGH motif; other site 208963015948 KMSKS motif; other site 208963015949 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 208963015950 Isochorismatase family; Region: Isochorismatase; pfam00857 208963015951 catalytic triad [active] 208963015952 metal binding site [ion binding]; metal-binding site 208963015953 conserved cis-peptide bond; other site 208963015954 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 208963015955 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 208963015956 active site 208963015957 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 208963015958 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 208963015959 homodimer interface [polypeptide binding]; other site 208963015960 NAD binding pocket [chemical binding]; other site 208963015961 ATP binding pocket [chemical binding]; other site 208963015962 Mg binding site [ion binding]; other site 208963015963 active-site loop [active] 208963015964 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 208963015965 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 208963015966 active site 208963015967 catalytic triad [active] 208963015968 oxyanion hole [active] 208963015969 Azurin [Energy production and conversion]; Region: COG3241 208963015970 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 208963015971 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963015972 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963015973 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 208963015974 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963015975 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 208963015976 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 208963015977 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 208963015978 Uncharacterized conserved protein [Function unknown]; Region: COG2308 208963015979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 208963015980 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 208963015981 hypothetical protein; Provisional; Region: PRK01254 208963015982 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 208963015983 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 208963015984 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 208963015985 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 208963015986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963015987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963015988 metal binding site [ion binding]; metal-binding site 208963015989 active site 208963015990 I-site; other site 208963015991 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 208963015992 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 208963015993 active site 208963015994 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 208963015995 substrate binding site [chemical binding]; other site 208963015996 catalytic residues [active] 208963015997 dimer interface [polypeptide binding]; other site 208963015998 replicative DNA helicase; Provisional; Region: PRK05748 208963015999 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 208963016000 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 208963016001 Walker A motif; other site 208963016002 ATP binding site [chemical binding]; other site 208963016003 Walker B motif; other site 208963016004 DNA binding loops [nucleotide binding] 208963016005 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 208963016006 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 208963016007 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 208963016008 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 208963016009 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 208963016010 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 208963016011 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 208963016012 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 208963016013 exoribonuclease R; Provisional; Region: PRK11642 208963016014 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 208963016015 RNB domain; Region: RNB; pfam00773 208963016016 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 208963016017 RNA binding site [nucleotide binding]; other site 208963016018 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 208963016019 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 208963016020 GDP-binding site [chemical binding]; other site 208963016021 ACT binding site; other site 208963016022 IMP binding site; other site 208963016023 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 208963016024 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 208963016025 dimer interface [polypeptide binding]; other site 208963016026 motif 1; other site 208963016027 active site 208963016028 motif 2; other site 208963016029 motif 3; other site 208963016030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 208963016031 FtsH protease regulator HflC; Provisional; Region: PRK11029 208963016032 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 208963016033 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 208963016034 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 208963016035 HflK protein; Region: hflK; TIGR01933 208963016036 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 208963016037 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 208963016038 HflX GTPase family; Region: HflX; cd01878 208963016039 G1 box; other site 208963016040 GTP/Mg2+ binding site [chemical binding]; other site 208963016041 Switch I region; other site 208963016042 G2 box; other site 208963016043 G3 box; other site 208963016044 Switch II region; other site 208963016045 G4 box; other site 208963016046 G5 box; other site 208963016047 bacterial Hfq-like; Region: Hfq; cd01716 208963016048 hexamer interface [polypeptide binding]; other site 208963016049 Sm1 motif; other site 208963016050 RNA binding site [nucleotide binding]; other site 208963016051 Sm2 motif; other site 208963016052 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 208963016053 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 208963016054 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 208963016055 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963016056 ATP binding site [chemical binding]; other site 208963016057 Mg2+ binding site [ion binding]; other site 208963016058 G-X-G motif; other site 208963016059 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 208963016060 ATP binding site [chemical binding]; other site 208963016061 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 208963016062 AMIN domain; Region: AMIN; pfam11741 208963016063 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 208963016064 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 208963016065 active site 208963016066 metal binding site [ion binding]; metal-binding site 208963016067 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 208963016068 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963016069 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 208963016070 putative carbohydrate kinase; Provisional; Region: PRK10565 208963016071 Uncharacterized conserved protein [Function unknown]; Region: COG0062 208963016072 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 208963016073 putative substrate binding site [chemical binding]; other site 208963016074 putative ATP binding site [chemical binding]; other site 208963016075 epoxyqueuosine reductase; Region: TIGR00276 208963016076 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 208963016077 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 208963016078 catalytic site [active] 208963016079 putative active site [active] 208963016080 putative substrate binding site [chemical binding]; other site 208963016081 dimer interface [polypeptide binding]; other site 208963016082 GTPase RsgA; Reviewed; Region: PRK12288 208963016083 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 208963016084 RNA binding site [nucleotide binding]; other site 208963016085 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 208963016086 GTPase/Zn-binding domain interface [polypeptide binding]; other site 208963016087 GTP/Mg2+ binding site [chemical binding]; other site 208963016088 G4 box; other site 208963016089 G5 box; other site 208963016090 G1 box; other site 208963016091 Switch I region; other site 208963016092 G2 box; other site 208963016093 G3 box; other site 208963016094 Switch II region; other site 208963016095 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 208963016096 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 208963016097 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 208963016098 ligand binding site [chemical binding]; other site 208963016099 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 208963016100 flagellar motor protein MotA; Validated; Region: PRK09110 208963016101 HDOD domain; Region: HDOD; pfam08668 208963016102 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 208963016103 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 208963016104 active site residue [active] 208963016105 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 208963016106 active site residue [active] 208963016107 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 208963016108 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 208963016109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 208963016110 active site 208963016111 phosphorylation site [posttranslational modification] 208963016112 dimerization interface [polypeptide binding]; other site 208963016113 PAS fold; Region: PAS; pfam00989 208963016114 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 208963016115 putative active site [active] 208963016116 heme pocket [chemical binding]; other site 208963016117 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963016118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963016119 metal binding site [ion binding]; metal-binding site 208963016120 active site 208963016121 I-site; other site 208963016122 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 208963016123 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 208963016124 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 208963016125 phosphoserine phosphatase SerB; Region: serB; TIGR00338 208963016126 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 208963016127 motif II; other site 208963016128 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 208963016129 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 208963016130 metal binding site [ion binding]; metal-binding site 208963016131 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 208963016132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 208963016133 Protein of unknown function (DUF330); Region: DUF330; pfam03886 208963016134 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 208963016135 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 208963016136 CAP-like domain; other site 208963016137 active site 208963016138 primary dimer interface [polypeptide binding]; other site 208963016139 Predicted aspartyl protease [General function prediction only]; Region: COG3577 208963016140 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 208963016141 catalytic motif [active] 208963016142 Catalytic residue [active] 208963016143 SdiA-regulated; Region: SdiA-regulated; cd09971 208963016144 putative active site [active] 208963016145 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 208963016146 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963016147 ATP binding site [chemical binding]; other site 208963016148 Mg2+ binding site [ion binding]; other site 208963016149 G-X-G motif; other site 208963016150 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 208963016151 anchoring element; other site 208963016152 dimer interface [polypeptide binding]; other site 208963016153 ATP binding site [chemical binding]; other site 208963016154 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 208963016155 active site 208963016156 metal binding site [ion binding]; metal-binding site 208963016157 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 208963016158 Predicted esterase [General function prediction only]; Region: COG3150 208963016159 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 208963016160 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 208963016161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 208963016162 active site 208963016163 metal binding site [ion binding]; metal-binding site 208963016164 hexamer interface [polypeptide binding]; other site 208963016165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3151 208963016166 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 208963016167 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 208963016168 dimer interface [polypeptide binding]; other site 208963016169 ADP-ribose binding site [chemical binding]; other site 208963016170 active site 208963016171 nudix motif; other site 208963016172 metal binding site [ion binding]; metal-binding site 208963016173 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 208963016174 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 208963016175 ThiC-associated domain; Region: ThiC-associated; pfam13667 208963016176 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 208963016177 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 208963016178 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 208963016179 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 208963016180 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 208963016181 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 208963016182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963016183 homodimer interface [polypeptide binding]; other site 208963016184 catalytic residue [active] 208963016185 hypothetical protein; Provisional; Region: PRK07524 208963016186 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 208963016187 PYR/PP interface [polypeptide binding]; other site 208963016188 dimer interface [polypeptide binding]; other site 208963016189 TPP binding site [chemical binding]; other site 208963016190 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963016191 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 208963016192 TPP-binding site [chemical binding]; other site 208963016193 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 208963016194 CoA binding domain; Region: CoA_binding_2; pfam13380 208963016195 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 208963016196 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 208963016197 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963016198 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963016199 active site 208963016200 enoyl-CoA hydratase; Provisional; Region: PRK06688 208963016201 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 208963016202 substrate binding site [chemical binding]; other site 208963016203 oxyanion hole (OAH) forming residues; other site 208963016204 trimer interface [polypeptide binding]; other site 208963016205 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 208963016206 S-methylmethionine transporter; Provisional; Region: PRK11387 208963016207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 208963016208 HAMP domain; Region: HAMP; pfam00672 208963016209 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 208963016210 dimer interface [polypeptide binding]; other site 208963016211 phosphorylation site [posttranslational modification] 208963016212 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963016213 ATP binding site [chemical binding]; other site 208963016214 Mg2+ binding site [ion binding]; other site 208963016215 G-X-G motif; other site 208963016216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963016217 Response regulator receiver domain; Region: Response_reg; pfam00072 208963016218 active site 208963016219 phosphorylation site [posttranslational modification] 208963016220 intermolecular recognition site; other site 208963016221 dimerization interface [polypeptide binding]; other site 208963016222 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963016223 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 208963016224 substrate binding pocket [chemical binding]; other site 208963016225 membrane-bound complex binding site; other site 208963016226 hinge residues; other site 208963016227 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 208963016228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963016229 active site 208963016230 phosphorylation site [posttranslational modification] 208963016231 intermolecular recognition site; other site 208963016232 dimerization interface [polypeptide binding]; other site 208963016233 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 208963016234 DNA binding site [nucleotide binding] 208963016235 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 208963016236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963016237 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 208963016238 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 208963016239 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 208963016240 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 208963016241 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 208963016242 putative active site [active] 208963016243 putative FMN binding site [chemical binding]; other site 208963016244 putative substrate binding site [chemical binding]; other site 208963016245 putative catalytic residue [active] 208963016246 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 208963016247 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 208963016248 non-specific DNA binding site [nucleotide binding]; other site 208963016249 salt bridge; other site 208963016250 sequence-specific DNA binding site [nucleotide binding]; other site 208963016251 Cupin domain; Region: Cupin_2; pfam07883 208963016252 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 208963016253 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 208963016254 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 208963016255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963016256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963016257 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 208963016258 dimerization interface [polypeptide binding]; other site 208963016259 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 208963016260 FAD dependent oxidoreductase; Region: DAO; pfam01266 208963016261 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963016262 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 208963016263 active site 208963016264 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 208963016265 catalytic tetrad [active] 208963016266 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963016267 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963016268 active site 208963016269 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 208963016270 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963016271 active site 208963016272 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 208963016273 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 208963016274 putative ribose interaction site [chemical binding]; other site 208963016275 putative ADP binding site [chemical binding]; other site 208963016276 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 208963016277 active site 208963016278 nucleotide binding site [chemical binding]; other site 208963016279 HIGH motif; other site 208963016280 KMSKS motif; other site 208963016281 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 208963016282 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 208963016283 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 208963016284 Walker A/P-loop; other site 208963016285 ATP binding site [chemical binding]; other site 208963016286 Q-loop/lid; other site 208963016287 ABC transporter signature motif; other site 208963016288 Walker B; other site 208963016289 D-loop; other site 208963016290 H-loop/switch region; other site 208963016291 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 208963016292 active site 208963016293 substrate binding site [chemical binding]; other site 208963016294 ATP binding site [chemical binding]; other site 208963016295 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 208963016296 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 208963016297 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 208963016298 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 208963016299 active site 208963016300 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963016301 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 208963016302 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 208963016303 Mig-14; Region: Mig-14; pfam07395 208963016304 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 208963016305 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 208963016306 putative ADP-binding pocket [chemical binding]; other site 208963016307 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963016308 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 208963016309 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 208963016310 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 208963016311 active site 208963016312 ATP binding site [chemical binding]; other site 208963016313 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 208963016314 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 208963016315 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 208963016316 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 208963016317 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963016318 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 208963016319 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 208963016320 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 208963016321 putative active site [active] 208963016322 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 208963016323 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 208963016324 putative active site [active] 208963016325 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 208963016326 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 208963016327 homodimer interface [polypeptide binding]; other site 208963016328 substrate-cofactor binding pocket; other site 208963016329 catalytic residue [active] 208963016330 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 208963016331 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 208963016332 metal binding triad; other site 208963016333 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 208963016334 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 208963016335 metal binding triad; other site 208963016336 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 208963016337 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 208963016338 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 208963016339 dimer interface [polypeptide binding]; other site 208963016340 TPP-binding site [chemical binding]; other site 208963016341 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 208963016342 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_long; TIGR01348 208963016343 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 208963016344 E3 interaction surface; other site 208963016345 lipoyl attachment site [posttranslational modification]; other site 208963016346 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 208963016347 E3 interaction surface; other site 208963016348 lipoyl attachment site [posttranslational modification]; other site 208963016349 e3 binding domain; Region: E3_binding; pfam02817 208963016350 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 208963016351 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 208963016352 GAF domain; Region: GAF; pfam01590 208963016353 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 208963016354 PAS domain; Region: PAS_9; pfam13426 208963016355 putative active site [active] 208963016356 heme pocket [chemical binding]; other site 208963016357 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963016358 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963016359 metal binding site [ion binding]; metal-binding site 208963016360 active site 208963016361 I-site; other site 208963016362 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 208963016363 methionine sulfoxide reductase A; Provisional; Region: PRK00058 208963016364 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 208963016365 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 208963016366 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 208963016367 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963016368 active site 208963016369 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 208963016370 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 208963016371 TrkA-C domain; Region: TrkA_C; pfam02080 208963016372 Transporter associated domain; Region: CorC_HlyC; smart01091 208963016373 hypothetical protein; Provisional; Region: PRK11281 208963016374 Vegetative insecticide protein 3A N terminal; Region: Vip3A_N; pfam12495 208963016375 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 208963016376 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963016377 Uncharacterized conserved protein [Function unknown]; Region: COG0397 208963016378 hypothetical protein; Validated; Region: PRK00029 208963016379 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 208963016380 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 208963016381 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 208963016382 homodimer interface [polypeptide binding]; other site 208963016383 substrate-cofactor binding pocket; other site 208963016384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963016385 catalytic residue [active] 208963016386 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 208963016387 CoenzymeA binding site [chemical binding]; other site 208963016388 subunit interaction site [polypeptide binding]; other site 208963016389 PHB binding site; other site 208963016390 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 208963016391 Ligand Binding Site [chemical binding]; other site 208963016392 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 208963016393 Ligand Binding Site [chemical binding]; other site 208963016394 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 208963016395 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 208963016396 P-loop; other site 208963016397 Magnesium ion binding site [ion binding]; other site 208963016398 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 208963016399 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 208963016400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963016401 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 208963016402 dimerization interface [polypeptide binding]; other site 208963016403 substrate binding pocket [chemical binding]; other site 208963016404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963016405 putative substrate translocation pore; other site 208963016406 short chain dehydrogenase; Provisional; Region: PRK06197 208963016407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963016408 NAD(P) binding site [chemical binding]; other site 208963016409 active site 208963016410 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963016411 Helix-turn-helix domain; Region: HTH_18; pfam12833 208963016412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963016413 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 208963016414 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 208963016415 substrate binding site [chemical binding]; other site 208963016416 active site 208963016417 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 208963016418 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963016419 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963016420 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 208963016421 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 208963016422 active site 208963016423 dimer interface [polypeptide binding]; other site 208963016424 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 208963016425 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 208963016426 active site 208963016427 FMN binding site [chemical binding]; other site 208963016428 substrate binding site [chemical binding]; other site 208963016429 3Fe-4S cluster binding site [ion binding]; other site 208963016430 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 208963016431 domain interface; other site 208963016432 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 208963016433 AAA ATPase domain; Region: AAA_16; pfam13191 208963016434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 208963016435 Sporulation related domain; Region: SPOR; pfam05036 208963016436 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 208963016437 active site 208963016438 dimer interface [polypeptide binding]; other site 208963016439 metal binding site [ion binding]; metal-binding site 208963016440 shikimate kinase; Reviewed; Region: aroK; PRK00131 208963016441 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 208963016442 ADP binding site [chemical binding]; other site 208963016443 magnesium binding site [ion binding]; other site 208963016444 putative shikimate binding site; other site 208963016445 AMIN domain; Region: AMIN; pfam11741 208963016446 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 208963016447 Secretin and TonB N terminus short domain; Region: STN; smart00965 208963016448 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 208963016449 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 208963016450 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 208963016451 Pilus assembly protein, PilP; Region: PilP; pfam04351 208963016452 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 208963016453 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 208963016454 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 208963016455 Competence protein A; Region: Competence_A; pfam11104 208963016456 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 208963016457 nucleotide binding site [chemical binding]; other site 208963016458 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 208963016459 Transglycosylase; Region: Transgly; pfam00912 208963016460 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 208963016461 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 208963016462 Malic enzyme, N-terminal domain; Region: malic; pfam00390 208963016463 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 208963016464 putative NAD(P) binding site [chemical binding]; other site 208963016465 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 208963016466 Peptidase family M48; Region: Peptidase_M48; pfam01435 208963016467 Staphylococcal nuclease homologues; Region: SNc; smart00318 208963016468 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 208963016469 Catalytic site; other site 208963016470 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 208963016471 primosome assembly protein PriA; Validated; Region: PRK05580 208963016472 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 208963016473 ATP binding site [chemical binding]; other site 208963016474 putative Mg++ binding site [ion binding]; other site 208963016475 helicase superfamily c-terminal domain; Region: HELICc; smart00490 208963016476 nucleotide binding region [chemical binding]; other site 208963016477 ATP-binding site [chemical binding]; other site 208963016478 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 208963016479 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 208963016480 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 208963016481 active site 208963016482 HIGH motif; other site 208963016483 KMSK motif region; other site 208963016484 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 208963016485 tRNA binding surface [nucleotide binding]; other site 208963016486 anticodon binding site; other site 208963016487 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 208963016488 Sporulation related domain; Region: SPOR; pfam05036 208963016489 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 208963016490 active site 208963016491 HslU subunit interaction site [polypeptide binding]; other site 208963016492 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 208963016493 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 208963016494 Walker A motif; other site 208963016495 ATP binding site [chemical binding]; other site 208963016496 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 208963016497 Walker B motif; other site 208963016498 arginine finger; other site 208963016499 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 208963016500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 208963016501 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 208963016502 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 208963016503 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 208963016504 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 208963016505 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 208963016506 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 208963016507 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 208963016508 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963016509 Bacterial transcriptional repressor; Region: TetR; pfam13972 208963016510 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 208963016511 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 208963016512 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 208963016513 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 208963016514 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 208963016515 S-adenosylmethionine binding site [chemical binding]; other site 208963016516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 208963016517 SCP-2 sterol transfer family; Region: SCP2; pfam02036 208963016518 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 208963016519 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 208963016520 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 208963016521 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 208963016522 metal binding site [ion binding]; metal-binding site 208963016523 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 208963016524 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 208963016525 sec-independent translocase; Provisional; Region: tatB; PRK00404 208963016526 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 208963016527 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 208963016528 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 208963016529 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 208963016530 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 208963016531 dimer interface [polypeptide binding]; other site 208963016532 putative CheW interface [polypeptide binding]; other site 208963016533 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 208963016534 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 208963016535 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 208963016536 Walker A/P-loop; other site 208963016537 ATP binding site [chemical binding]; other site 208963016538 Q-loop/lid; other site 208963016539 ABC transporter signature motif; other site 208963016540 Walker B; other site 208963016541 D-loop; other site 208963016542 H-loop/switch region; other site 208963016543 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963016544 dimer interface [polypeptide binding]; other site 208963016545 conserved gate region; other site 208963016546 putative PBP binding loops; other site 208963016547 ABC-ATPase subunit interface; other site 208963016548 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963016549 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 208963016550 substrate binding pocket [chemical binding]; other site 208963016551 membrane-bound complex binding site; other site 208963016552 hinge residues; other site 208963016553 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 208963016554 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 208963016555 Ligand binding site; other site 208963016556 DXD motif; other site 208963016557 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 208963016558 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 208963016559 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 208963016560 putative active site [active] 208963016561 dimerization interface [polypeptide binding]; other site 208963016562 putative tRNAtyr binding site [nucleotide binding]; other site 208963016563 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 208963016564 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 208963016565 TAP-like protein; Region: Abhydrolase_4; pfam08386 208963016566 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 208963016567 nudix motif; other site 208963016568 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 208963016569 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 208963016570 substrate binding pocket [chemical binding]; other site 208963016571 membrane-bound complex binding site; other site 208963016572 hinge residues; other site 208963016573 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 208963016574 homotrimer interaction site [polypeptide binding]; other site 208963016575 putative active site [active] 208963016576 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 208963016577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 208963016578 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 208963016579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963016580 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 208963016581 dimerization interface [polypeptide binding]; other site 208963016582 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963016583 Sel1-like repeats; Region: SEL1; smart00671 208963016584 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963016585 Sel1 repeat; Region: Sel1; cl02723 208963016586 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963016587 Sel1-like repeats; Region: SEL1; smart00671 208963016588 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 208963016589 Sel1-like repeats; Region: SEL1; smart00671 208963016590 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 208963016591 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 208963016592 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 208963016593 putative active site [active] 208963016594 catalytic site [active] 208963016595 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 208963016596 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 208963016597 putative active site [active] 208963016598 catalytic site [active] 208963016599 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963016600 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963016601 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963016602 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 208963016603 N-formylglutamate amidohydrolase; Region: FGase; cl01522 208963016604 imidazolonepropionase; Validated; Region: PRK09356 208963016605 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 208963016606 active site 208963016607 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 208963016608 active sites [active] 208963016609 tetramer interface [polypeptide binding]; other site 208963016610 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 208963016611 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 208963016612 Walker A/P-loop; other site 208963016613 ATP binding site [chemical binding]; other site 208963016614 Q-loop/lid; other site 208963016615 ABC transporter signature motif; other site 208963016616 Walker B; other site 208963016617 D-loop; other site 208963016618 H-loop/switch region; other site 208963016619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963016620 dimer interface [polypeptide binding]; other site 208963016621 conserved gate region; other site 208963016622 putative PBP binding loops; other site 208963016623 ABC-ATPase subunit interface; other site 208963016624 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 208963016625 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 208963016626 putative proline-specific permease; Provisional; Region: proY; PRK10580 208963016627 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 208963016628 active sites [active] 208963016629 tetramer interface [polypeptide binding]; other site 208963016630 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 208963016631 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 208963016632 Na binding site [ion binding]; other site 208963016633 urocanate hydratase; Provisional; Region: PRK05414 208963016634 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 208963016635 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 208963016636 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 208963016637 putative di-iron ligands [ion binding]; other site 208963016638 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 208963016639 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 208963016640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 208963016641 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 208963016642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963016643 DNA-binding site [nucleotide binding]; DNA binding site 208963016644 UTRA domain; Region: UTRA; pfam07702 208963016645 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 208963016646 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 208963016647 active site 208963016648 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 208963016649 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 208963016650 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 208963016651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 208963016652 fructose-1,6-bisphosphatase family protein; Region: PLN02628 208963016653 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 208963016654 AMP binding site [chemical binding]; other site 208963016655 metal binding site [ion binding]; metal-binding site 208963016656 active site 208963016657 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 208963016658 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 208963016659 dimer interface [polypeptide binding]; other site 208963016660 active site 208963016661 metal binding site [ion binding]; metal-binding site 208963016662 glutathione binding site [chemical binding]; other site 208963016663 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 208963016664 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 208963016665 active site 208963016666 catalytic triad [active] 208963016667 oxyanion hole [active] 208963016668 Autotransporter beta-domain; Region: Autotransporter; pfam03797 208963016669 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 208963016670 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 208963016671 Predicted membrane protein [Function unknown]; Region: COG5373 208963016672 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 208963016673 S-adenosylmethionine binding site [chemical binding]; other site 208963016674 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 208963016675 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 208963016676 DNA binding residues [nucleotide binding] 208963016677 putative dimer interface [polypeptide binding]; other site 208963016678 putative metal binding residues [ion binding]; other site 208963016679 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 208963016680 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 208963016681 G1 box; other site 208963016682 putative GEF interaction site [polypeptide binding]; other site 208963016683 GTP/Mg2+ binding site [chemical binding]; other site 208963016684 Switch I region; other site 208963016685 G2 box; other site 208963016686 G3 box; other site 208963016687 Switch II region; other site 208963016688 G4 box; other site 208963016689 G5 box; other site 208963016690 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 208963016691 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 208963016692 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 208963016693 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 208963016694 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 208963016695 Ligand Binding Site [chemical binding]; other site 208963016696 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 208963016697 glutamine synthetase; Provisional; Region: glnA; PRK09469 208963016698 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 208963016699 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963016700 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 208963016701 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963016702 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 208963016703 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 208963016704 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 208963016705 PAS domain; Region: PAS; smart00091 208963016706 putative active site [active] 208963016707 heme pocket [chemical binding]; other site 208963016708 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 208963016709 dimer interface [polypeptide binding]; other site 208963016710 phosphorylation site [posttranslational modification] 208963016711 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963016712 ATP binding site [chemical binding]; other site 208963016713 Mg2+ binding site [ion binding]; other site 208963016714 G-X-G motif; other site 208963016715 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 208963016716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963016717 active site 208963016718 phosphorylation site [posttranslational modification] 208963016719 intermolecular recognition site; other site 208963016720 dimerization interface [polypeptide binding]; other site 208963016721 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 208963016722 Walker A motif; other site 208963016723 ATP binding site [chemical binding]; other site 208963016724 Walker B motif; other site 208963016725 arginine finger; other site 208963016726 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963016727 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 208963016728 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 208963016729 SecA binding site; other site 208963016730 Preprotein binding site; other site 208963016731 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 208963016732 GSH binding site [chemical binding]; other site 208963016733 catalytic residues [active] 208963016734 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 208963016735 active site residue [active] 208963016736 phosphoglyceromutase; Provisional; Region: PRK05434 208963016737 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 208963016738 CAAX protease self-immunity; Region: Abi; pfam02517 208963016739 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 208963016740 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963016741 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 208963016742 C-terminal peptidase (prc); Region: prc; TIGR00225 208963016743 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 208963016744 protein binding site [polypeptide binding]; other site 208963016745 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 208963016746 Catalytic dyad [active] 208963016747 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 208963016748 NodB motif; other site 208963016749 putative active site [active] 208963016750 putative catalytic site [active] 208963016751 Zn binding site [ion binding]; other site 208963016752 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 208963016753 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 208963016754 substrate binding pocket [chemical binding]; other site 208963016755 membrane-bound complex binding site; other site 208963016756 hinge residues; other site 208963016757 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 208963016758 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963016759 substrate binding pocket [chemical binding]; other site 208963016760 membrane-bound complex binding site; other site 208963016761 hinge residues; other site 208963016762 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 208963016763 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963016764 substrate binding pocket [chemical binding]; other site 208963016765 membrane-bound complex binding site; other site 208963016766 hinge residues; other site 208963016767 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 208963016768 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 208963016769 substrate binding site [chemical binding]; other site 208963016770 glutamase interaction surface [polypeptide binding]; other site 208963016771 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 208963016772 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 208963016773 catalytic residues [active] 208963016774 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 208963016775 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 208963016776 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 208963016777 putative active site [active] 208963016778 oxyanion strand; other site 208963016779 catalytic triad [active] 208963016780 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 208963016781 putative active site pocket [active] 208963016782 4-fold oligomerization interface [polypeptide binding]; other site 208963016783 metal binding residues [ion binding]; metal-binding site 208963016784 3-fold/trimer interface [polypeptide binding]; other site 208963016785 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 208963016786 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 208963016787 Predicted dehydrogenase [General function prediction only]; Region: COG0579 208963016788 hydroxyglutarate oxidase; Provisional; Region: PRK11728 208963016789 AsmA family; Region: AsmA; pfam05170 208963016790 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 208963016791 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 208963016792 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 208963016793 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 208963016794 minor groove reading motif; other site 208963016795 helix-hairpin-helix signature motif; other site 208963016796 substrate binding pocket [chemical binding]; other site 208963016797 active site 208963016798 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 208963016799 DNA binding and oxoG recognition site [nucleotide binding] 208963016800 oxidative damage protection protein; Provisional; Region: PRK05408 208963016801 protein fragment, probably inactive 208963016802 protein fragment, probably inactive 208963016803 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963016804 classical (c) SDRs; Region: SDR_c; cd05233 208963016805 NAD(P) binding site [chemical binding]; other site 208963016806 active site 208963016807 Uncharacterized conserved protein [Function unknown]; Region: COG2928 208963016808 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 208963016809 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 208963016810 Walker A/P-loop; other site 208963016811 ATP binding site [chemical binding]; other site 208963016812 Q-loop/lid; other site 208963016813 ABC transporter signature motif; other site 208963016814 Walker B; other site 208963016815 D-loop; other site 208963016816 H-loop/switch region; other site 208963016817 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963016818 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 208963016819 substrate binding pocket [chemical binding]; other site 208963016820 membrane-bound complex binding site; other site 208963016821 hinge residues; other site 208963016822 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963016823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963016824 dimer interface [polypeptide binding]; other site 208963016825 conserved gate region; other site 208963016826 putative PBP binding loops; other site 208963016827 ABC-ATPase subunit interface; other site 208963016828 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 208963016829 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963016830 dimer interface [polypeptide binding]; other site 208963016831 conserved gate region; other site 208963016832 putative PBP binding loops; other site 208963016833 ABC-ATPase subunit interface; other site 208963016834 Methyltransferase domain; Region: Methyltransf_32; pfam13679 208963016835 MarR family; Region: MarR_2; cl17246 208963016836 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 208963016837 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 208963016838 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 208963016839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 208963016840 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963016841 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 208963016842 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963016843 putative substrate translocation pore; other site 208963016844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963016845 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 208963016846 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 208963016847 NAD binding site [chemical binding]; other site 208963016848 substrate binding site [chemical binding]; other site 208963016849 homodimer interface [polypeptide binding]; other site 208963016850 active site 208963016851 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 208963016852 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 208963016853 NADP binding site [chemical binding]; other site 208963016854 active site 208963016855 putative substrate binding site [chemical binding]; other site 208963016856 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 208963016857 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 208963016858 substrate binding site; other site 208963016859 tetramer interface; other site 208963016860 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 208963016861 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 208963016862 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 208963016863 dimer interface [polypeptide binding]; other site 208963016864 phosphorylation site [posttranslational modification] 208963016865 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963016866 ATP binding site [chemical binding]; other site 208963016867 Mg2+ binding site [ion binding]; other site 208963016868 G-X-G motif; other site 208963016869 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963016870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963016871 active site 208963016872 phosphorylation site [posttranslational modification] 208963016873 intermolecular recognition site; other site 208963016874 dimerization interface [polypeptide binding]; other site 208963016875 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 208963016876 Walker A motif; other site 208963016877 ATP binding site [chemical binding]; other site 208963016878 Walker B motif; other site 208963016879 arginine finger; other site 208963016880 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963016881 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 208963016882 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 208963016883 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 208963016884 DctM-like transporters; Region: DctM; pfam06808 208963016885 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 208963016886 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 208963016887 arginine deiminase; Provisional; Region: PRK01388 208963016888 ornithine carbamoyltransferase; Validated; Region: PRK02102 208963016889 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 208963016890 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 208963016891 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 208963016892 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 208963016893 putative substrate binding site [chemical binding]; other site 208963016894 nucleotide binding site [chemical binding]; other site 208963016895 nucleotide binding site [chemical binding]; other site 208963016896 homodimer interface [polypeptide binding]; other site 208963016897 "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 208963016898 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 208963016899 active site 208963016900 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 208963016901 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 208963016902 active site 208963016903 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 208963016904 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 208963016905 dimer interface [polypeptide binding]; other site 208963016906 ADP-ribose binding site [chemical binding]; other site 208963016907 active site 208963016908 nudix motif; other site 208963016909 metal binding site [ion binding]; metal-binding site 208963016910 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 208963016911 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 208963016912 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 208963016913 motif II; other site 208963016914 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 208963016915 BON domain; Region: BON; pfam04972 208963016916 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 208963016917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963016918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963016919 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 208963016920 dimerization interface [polypeptide binding]; other site 208963016921 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 208963016922 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 208963016923 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 208963016924 putative molybdopterin cofactor binding site [chemical binding]; other site 208963016925 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 208963016926 putative molybdopterin cofactor binding site; other site 208963016927 Global regulator protein family; Region: CsrA; pfam02599 208963016928 chorismate mutase; Provisional; Region: PRK09269 208963016929 chorismate mutase, putative; Region: CM_mono2; TIGR01806 208963016930 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 208963016931 active site 208963016932 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 208963016933 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 208963016934 active site 208963016935 NAD binding site [chemical binding]; other site 208963016936 metal binding site [ion binding]; metal-binding site 208963016937 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 208963016938 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 208963016939 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 208963016940 active site 208963016941 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 208963016942 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 208963016943 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 208963016944 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963016945 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963016946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963016947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963016948 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 208963016949 dimerization interface [polypeptide binding]; other site 208963016950 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 208963016951 dimer interface [polypeptide binding]; other site 208963016952 FMN binding site [chemical binding]; other site 208963016953 Fimbrial protein; Region: Fimbrial; cl01416 208963016954 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 208963016955 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 208963016956 active site 208963016957 substrate-binding site [chemical binding]; other site 208963016958 metal-binding site [ion binding] 208963016959 ATP binding site [chemical binding]; other site 208963016960 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 208963016961 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 208963016962 dimerization interface [polypeptide binding]; other site 208963016963 domain crossover interface; other site 208963016964 redox-dependent activation switch; other site 208963016965 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 208963016966 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 208963016967 active site 208963016968 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 208963016969 RNA binding surface [nucleotide binding]; other site 208963016970 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 208963016971 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 208963016972 RimK-like ATP-grasp domain; Region: RimK; pfam08443 208963016973 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 208963016974 dimer interface [polypeptide binding]; other site 208963016975 catalytic triad [active] 208963016976 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 208963016977 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 208963016978 dimerization interface [polypeptide binding]; other site 208963016979 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963016980 ATP binding site [chemical binding]; other site 208963016981 Mg2+ binding site [ion binding]; other site 208963016982 G-X-G motif; other site 208963016983 osmolarity response regulator; Provisional; Region: ompR; PRK09468 208963016984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963016985 active site 208963016986 phosphorylation site [posttranslational modification] 208963016987 intermolecular recognition site; other site 208963016988 dimerization interface [polypeptide binding]; other site 208963016989 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 208963016990 DNA binding site [nucleotide binding] 208963016991 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 208963016992 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 208963016993 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 208963016994 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 208963016995 RNA binding site [nucleotide binding]; other site 208963016996 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 208963016997 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 208963016998 CoenzymeA binding site [chemical binding]; other site 208963016999 subunit interaction site [polypeptide binding]; other site 208963017000 PHB binding site; other site 208963017001 glutamate--cysteine ligase; Provisional; Region: PRK02107 208963017002 N-acetylglutamate synthase; Validated; Region: PRK05279 208963017003 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 208963017004 putative feedback inhibition sensing region; other site 208963017005 putative nucleotide binding site [chemical binding]; other site 208963017006 putative substrate binding site [chemical binding]; other site 208963017007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 208963017008 Coenzyme A binding pocket [chemical binding]; other site 208963017009 inner membrane protein; Provisional; Region: PRK10995 208963017010 acetylornithine deacetylase; Provisional; Region: PRK05111 208963017011 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 208963017012 metal binding site [ion binding]; metal-binding site 208963017013 putative dimer interface [polypeptide binding]; other site 208963017014 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 208963017015 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 208963017016 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 208963017017 Uncharacterized conserved protein [Function unknown]; Region: COG3025 208963017018 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 208963017019 putative active site [active] 208963017020 putative metal binding residues [ion binding]; other site 208963017021 signature motif; other site 208963017022 putative triphosphate binding site [ion binding]; other site 208963017023 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 208963017024 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 208963017025 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 208963017026 Walker A motif; other site 208963017027 ATP binding site [chemical binding]; other site 208963017028 Walker B motif; other site 208963017029 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 208963017030 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 208963017031 glycine dehydrogenase; Provisional; Region: PRK12566 208963017032 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 208963017033 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 208963017034 catalytic residue [active] 208963017035 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 208963017036 tetramer interface [polypeptide binding]; other site 208963017037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963017038 catalytic residue [active] 208963017039 glycine cleavage system protein H; Provisional; Region: PRK13380 208963017040 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 208963017041 lipoyl attachment site [posttranslational modification]; other site 208963017042 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 208963017043 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 208963017044 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 208963017045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963017046 dimer interface [polypeptide binding]; other site 208963017047 conserved gate region; other site 208963017048 putative PBP binding loops; other site 208963017049 ABC-ATPase subunit interface; other site 208963017050 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 208963017051 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 208963017052 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 208963017053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963017054 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 208963017055 dimerization interface [polypeptide binding]; other site 208963017056 substrate binding pocket [chemical binding]; other site 208963017057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963017058 putative substrate translocation pore; other site 208963017059 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963017060 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 208963017061 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 208963017062 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 208963017063 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 208963017064 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 208963017065 proline aminopeptidase P II; Provisional; Region: PRK10879 208963017066 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 208963017067 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 208963017068 active site 208963017069 hypothetical protein; Reviewed; Region: PRK02166 208963017070 TIGR02449 family protein; Region: TIGR02449 208963017071 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 208963017072 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 208963017073 Uncharacterized conserved protein [Function unknown]; Region: COG2947 208963017074 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 208963017075 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 208963017076 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 208963017077 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 208963017078 Walker A/P-loop; other site 208963017079 ATP binding site [chemical binding]; other site 208963017080 Q-loop/lid; other site 208963017081 ABC transporter signature motif; other site 208963017082 Walker B; other site 208963017083 D-loop; other site 208963017084 H-loop/switch region; other site 208963017085 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 208963017086 Walker A/P-loop; other site 208963017087 ATP binding site [chemical binding]; other site 208963017088 Q-loop/lid; other site 208963017089 ABC transporter signature motif; other site 208963017090 Walker B; other site 208963017091 D-loop; other site 208963017092 H-loop/switch region; other site 208963017093 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 208963017094 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 208963017095 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 208963017096 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 208963017097 HlyD family secretion protein; Region: HlyD_3; pfam13437 208963017098 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 208963017099 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 208963017100 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 208963017101 NAD(P) binding site [chemical binding]; other site 208963017102 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 208963017103 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963017104 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963017105 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 208963017106 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 208963017107 catalytic loop [active] 208963017108 iron binding site [ion binding]; other site 208963017109 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 208963017110 FAD binding pocket [chemical binding]; other site 208963017111 FAD binding motif [chemical binding]; other site 208963017112 phosphate binding motif [ion binding]; other site 208963017113 beta-alpha-beta structure motif; other site 208963017114 NAD binding pocket [chemical binding]; other site 208963017115 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 208963017116 Acyltransferase family; Region: Acyl_transf_3; pfam01757 208963017117 transcription termination factor Rho; Provisional; Region: rho; PRK09376 208963017118 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 208963017119 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 208963017120 RNA binding site [nucleotide binding]; other site 208963017121 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 208963017122 multimer interface [polypeptide binding]; other site 208963017123 Walker A motif; other site 208963017124 ATP binding site [chemical binding]; other site 208963017125 Walker B motif; other site 208963017126 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 208963017127 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 208963017128 catalytic residues [active] 208963017129 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 208963017130 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 208963017131 polyphosphate kinase; Provisional; Region: PRK05443 208963017132 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 208963017133 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 208963017134 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 208963017135 putative domain interface [polypeptide binding]; other site 208963017136 putative active site [active] 208963017137 catalytic site [active] 208963017138 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 208963017139 putative domain interface [polypeptide binding]; other site 208963017140 putative active site [active] 208963017141 catalytic site [active] 208963017142 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 208963017143 dimer interface [polypeptide binding]; other site 208963017144 active site 208963017145 aspartate-rich active site metal binding site; other site 208963017146 allosteric magnesium binding site [ion binding]; other site 208963017147 Schiff base residues; other site 208963017148 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 208963017149 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 208963017150 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 208963017151 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 208963017152 conserved cys residue [active] 208963017153 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 208963017154 CoenzymeA binding site [chemical binding]; other site 208963017155 subunit interaction site [polypeptide binding]; other site 208963017156 PHB binding site; other site 208963017157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 208963017158 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 208963017159 Cytochrome c; Region: Cytochrom_C; pfam00034 208963017160 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 208963017161 LysE type translocator; Region: LysE; cl00565 208963017162 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 208963017163 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 208963017164 Mechanosensitive ion channel; Region: MS_channel; pfam00924 208963017165 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 208963017166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963017167 Walker A/P-loop; other site 208963017168 ATP binding site [chemical binding]; other site 208963017169 Q-loop/lid; other site 208963017170 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963017171 ABC transporter; Region: ABC_tran_2; pfam12848 208963017172 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 208963017173 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 208963017174 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 208963017175 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 208963017176 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 208963017177 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 208963017178 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 208963017179 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 208963017180 HemY protein N-terminus; Region: HemY_N; pfam07219 208963017181 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 208963017182 binding surface 208963017183 TPR motif; other site 208963017184 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 208963017185 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 208963017186 uroporphyrinogen-III synthase; Validated; Region: PRK05752 208963017187 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 208963017188 active site 208963017189 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 208963017190 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 208963017191 domain interfaces; other site 208963017192 active site 208963017193 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 208963017194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963017195 active site 208963017196 phosphorylation site [posttranslational modification] 208963017197 intermolecular recognition site; other site 208963017198 dimerization interface [polypeptide binding]; other site 208963017199 LytTr DNA-binding domain; Region: LytTR; pfam04397 208963017200 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 208963017201 Histidine kinase; Region: His_kinase; pfam06580 208963017202 argininosuccinate lyase; Provisional; Region: PRK00855 208963017203 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 208963017204 active sites [active] 208963017205 tetramer interface [polypeptide binding]; other site 208963017206 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 208963017207 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 208963017208 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 208963017209 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 208963017210 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 208963017211 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 208963017212 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 208963017213 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 208963017214 Cl binding site [ion binding]; other site 208963017215 oligomer interface [polypeptide binding]; other site 208963017216 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 208963017217 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 208963017218 substrate binding pocket [chemical binding]; other site 208963017219 membrane-bound complex binding site; other site 208963017220 hinge residues; other site 208963017221 TIGR02647 family protein; Region: DNA 208963017222 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 208963017223 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 208963017224 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 208963017225 Uncharacterized conserved protein [Function unknown]; Region: COG4278 208963017226 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 208963017227 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 208963017228 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 208963017229 putative iron binding site [ion binding]; other site 208963017230 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 208963017231 diaminopimelate decarboxylase; Region: lysA; TIGR01048 208963017232 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 208963017233 active site 208963017234 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 208963017235 substrate binding site [chemical binding]; other site 208963017236 catalytic residues [active] 208963017237 dimer interface [polypeptide binding]; other site 208963017238 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 208963017239 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 208963017240 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 208963017241 Protein of unknown function, DUF484; Region: DUF484; pfam04340 208963017242 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 208963017243 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 208963017244 active site 208963017245 DNA binding site [nucleotide binding] 208963017246 Int/Topo IB signature motif; other site 208963017247 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 208963017248 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 208963017249 motif II; other site 208963017250 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 208963017251 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963017252 DNA-binding site [nucleotide binding]; DNA binding site 208963017253 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 208963017254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963017255 homodimer interface [polypeptide binding]; other site 208963017256 catalytic residue [active] 208963017257 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 208963017258 Uncharacterized conserved protein [Function unknown]; Region: COG0432 208963017259 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 208963017260 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 208963017261 Nitrogen regulatory protein P-II; Region: P-II; smart00938 208963017262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 208963017263 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 208963017264 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 208963017265 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 208963017266 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 208963017267 BCCT family transporter; Region: BCCT; cl00569 208963017268 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 208963017269 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 208963017270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963017271 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 208963017272 dimerization interface [polypeptide binding]; other site 208963017273 substrate binding pocket [chemical binding]; other site 208963017274 multidrug efflux protein NorA; Provisional; Region: PRK00187 208963017275 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 208963017276 cation binding site [ion binding]; other site 208963017277 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963017278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963017279 metal binding site [ion binding]; metal-binding site 208963017280 active site 208963017281 I-site; other site 208963017282 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 208963017283 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 208963017284 Part of AAA domain; Region: AAA_19; pfam13245 208963017285 Family description; Region: UvrD_C_2; pfam13538 208963017286 pyruvate dehydrogenase; Provisional; Region: PRK09124 208963017287 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 208963017288 PYR/PP interface [polypeptide binding]; other site 208963017289 dimer interface [polypeptide binding]; other site 208963017290 tetramer interface [polypeptide binding]; other site 208963017291 TPP binding site [chemical binding]; other site 208963017292 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 208963017293 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 208963017294 TPP-binding site [chemical binding]; other site 208963017295 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963017296 active site 208963017297 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 208963017298 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 208963017299 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 208963017300 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 208963017301 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 208963017302 non-specific DNA binding site [nucleotide binding]; other site 208963017303 salt bridge; other site 208963017304 sequence-specific DNA binding site [nucleotide binding]; other site 208963017305 Cupin domain; Region: Cupin_2; pfam07883 208963017306 alanine racemase; Reviewed; Region: dadX; PRK03646 208963017307 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 208963017308 active site 208963017309 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 208963017310 substrate binding site [chemical binding]; other site 208963017311 catalytic residues [active] 208963017312 dimer interface [polypeptide binding]; other site 208963017313 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 208963017314 homotrimer interaction site [polypeptide binding]; other site 208963017315 putative active site [active] 208963017316 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 208963017317 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 208963017318 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 208963017319 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 208963017320 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 208963017321 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 208963017322 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 208963017323 putative DNA binding site [nucleotide binding]; other site 208963017324 putative Zn2+ binding site [ion binding]; other site 208963017325 AsnC family; Region: AsnC_trans_reg; pfam01037 208963017326 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963017327 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 208963017328 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 208963017329 PLD-like domain; Region: PLDc_2; pfam13091 208963017330 putative active site [active] 208963017331 catalytic site [active] 208963017332 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 208963017333 PLD-like domain; Region: PLDc_2; pfam13091 208963017334 putative active site [active] 208963017335 catalytic site [active] 208963017336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963017337 Major Facilitator Superfamily; Region: MFS_1; pfam07690 208963017338 putative substrate translocation pore; other site 208963017339 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 208963017340 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 208963017341 NAD(P) binding site [chemical binding]; other site 208963017342 catalytic residues [active] 208963017343 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 208963017344 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 208963017345 inhibitor-cofactor binding pocket; inhibition site 208963017346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963017347 catalytic residue [active] 208963017348 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 208963017349 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 208963017350 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 208963017351 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 208963017352 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 208963017353 peptide binding site [polypeptide binding]; other site 208963017354 hypothetical protein; Reviewed; Region: PRK00024 208963017355 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 208963017356 MPN+ (JAMM) motif; other site 208963017357 Zinc-binding site [ion binding]; other site 208963017358 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 208963017359 Flavoprotein; Region: Flavoprotein; pfam02441 208963017360 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 208963017361 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 208963017362 trimer interface [polypeptide binding]; other site 208963017363 active site 208963017364 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 208963017365 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 208963017366 active site 208963017367 substrate binding site [chemical binding]; other site 208963017368 metal binding site [ion binding]; metal-binding site 208963017369 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 208963017370 feedback inhibition sensing region; other site 208963017371 homohexameric interface [polypeptide binding]; other site 208963017372 nucleotide binding site [chemical binding]; other site 208963017373 N-acetyl-L-glutamate binding site [chemical binding]; other site 208963017374 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 208963017375 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 208963017376 SurA N-terminal domain; Region: SurA_N; pfam09312 208963017377 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963017378 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 208963017379 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 208963017380 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 208963017381 dimer interface [polypeptide binding]; other site 208963017382 active site 208963017383 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 208963017384 substrate binding site [chemical binding]; other site 208963017385 catalytic residue [active] 208963017386 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 208963017387 FAD binding domain; Region: FAD_binding_4; pfam01565 208963017388 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 208963017389 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 208963017390 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 208963017391 active site 208963017392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 208963017393 active site 208963017394 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 208963017395 putative active site [active] 208963017396 putative catalytic site [active] 208963017397 putative DNA binding site [nucleotide binding]; other site 208963017398 putative phosphate binding site [ion binding]; other site 208963017399 metal binding site A [ion binding]; metal-binding site 208963017400 putative AP binding site [nucleotide binding]; other site 208963017401 putative metal binding site B [ion binding]; other site 208963017402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 208963017403 ribonuclease PH; Reviewed; Region: rph; PRK00173 208963017404 Ribonuclease PH; Region: RNase_PH_bact; cd11362 208963017405 hexamer interface [polypeptide binding]; other site 208963017406 active site 208963017407 hypothetical protein; Provisional; Region: PRK11820 208963017408 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 208963017409 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 208963017410 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 208963017411 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 208963017412 catalytic site [active] 208963017413 G-X2-G-X-G-K; other site 208963017414 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 208963017415 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 208963017416 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 208963017417 Zn2+ binding site [ion binding]; other site 208963017418 Mg2+ binding site [ion binding]; other site 208963017419 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 208963017420 synthetase active site [active] 208963017421 NTP binding site [chemical binding]; other site 208963017422 metal binding site [ion binding]; metal-binding site 208963017423 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 208963017424 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 208963017425 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 208963017426 homotrimer interaction site [polypeptide binding]; other site 208963017427 putative active site [active] 208963017428 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 208963017429 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 208963017430 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 208963017431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963017432 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 208963017433 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 208963017434 putative NAD(P) binding site [chemical binding]; other site 208963017435 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 208963017436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963017437 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 208963017438 dimerization interface [polypeptide binding]; other site 208963017439 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 208963017440 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 208963017441 ssDNA binding site; other site 208963017442 generic binding surface II; other site 208963017443 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 208963017444 ATP binding site [chemical binding]; other site 208963017445 putative Mg++ binding site [ion binding]; other site 208963017446 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 208963017447 nucleotide binding region [chemical binding]; other site 208963017448 ATP-binding site [chemical binding]; other site 208963017449 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 208963017450 putative deacylase active site [active] 208963017451 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 208963017452 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 208963017453 IHF dimer interface [polypeptide binding]; other site 208963017454 IHF - DNA interface [nucleotide binding]; other site 208963017455 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 208963017456 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 208963017457 Rubredoxin [Energy production and conversion]; Region: COG1773 208963017458 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 208963017459 iron binding site [ion binding]; other site 208963017460 Rubredoxin [Energy production and conversion]; Region: COG1773 208963017461 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 208963017462 iron binding site [ion binding]; other site 208963017463 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 208963017464 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 208963017465 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 208963017466 Cysteine-rich domain; Region: CCG; pfam02754 208963017467 Cysteine-rich domain; Region: CCG; pfam02754 208963017468 FAD binding domain; Region: FAD_binding_4; pfam01565 208963017469 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 208963017470 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 208963017471 FAD binding domain; Region: FAD_binding_4; pfam01565 208963017472 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 208963017473 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963017474 DNA-binding site [nucleotide binding]; DNA binding site 208963017475 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 208963017476 Chorismate lyase; Region: Chor_lyase; pfam04345 208963017477 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 208963017478 UbiA prenyltransferase family; Region: UbiA; pfam01040 208963017479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 208963017480 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 208963017481 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 208963017482 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 208963017483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963017484 active site 208963017485 phosphorylation site [posttranslational modification] 208963017486 intermolecular recognition site; other site 208963017487 dimerization interface [polypeptide binding]; other site 208963017488 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 208963017489 DNA binding site [nucleotide binding] 208963017490 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 208963017491 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 208963017492 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 208963017493 putative active site [active] 208963017494 heme pocket [chemical binding]; other site 208963017495 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 208963017496 dimer interface [polypeptide binding]; other site 208963017497 phosphorylation site [posttranslational modification] 208963017498 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963017499 ATP binding site [chemical binding]; other site 208963017500 Mg2+ binding site [ion binding]; other site 208963017501 G-X-G motif; other site 208963017502 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 208963017503 Domain of unknown function DUF21; Region: DUF21; pfam01595 208963017504 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 208963017505 Transporter associated domain; Region: CorC_HlyC; smart01091 208963017506 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 208963017507 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 208963017508 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963017509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963017510 Response regulator receiver domain; Region: Response_reg; pfam00072 208963017511 active site 208963017512 phosphorylation site [posttranslational modification] 208963017513 intermolecular recognition site; other site 208963017514 dimerization interface [polypeptide binding]; other site 208963017515 transcriptional regulator PhoU; Provisional; Region: PRK11115 208963017516 PhoU domain; Region: PhoU; pfam01895 208963017517 PhoU domain; Region: PhoU; pfam01895 208963017518 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 208963017519 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 208963017520 Walker A/P-loop; other site 208963017521 ATP binding site [chemical binding]; other site 208963017522 Q-loop/lid; other site 208963017523 ABC transporter signature motif; other site 208963017524 Walker B; other site 208963017525 D-loop; other site 208963017526 H-loop/switch region; other site 208963017527 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 208963017528 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 208963017529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963017530 dimer interface [polypeptide binding]; other site 208963017531 conserved gate region; other site 208963017532 putative PBP binding loops; other site 208963017533 ABC-ATPase subunit interface; other site 208963017534 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 208963017535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963017536 ABC-ATPase subunit interface; other site 208963017537 PBP superfamily domain; Region: PBP_like_2; cl17296 208963017538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963017539 metabolite-proton symporter; Region: 2A0106; TIGR00883 208963017540 putative substrate translocation pore; other site 208963017541 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 208963017542 choline dehydrogenase; Validated; Region: PRK02106 208963017543 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 208963017544 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 208963017545 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 208963017546 tetrameric interface [polypeptide binding]; other site 208963017547 NAD binding site [chemical binding]; other site 208963017548 catalytic residues [active] 208963017549 transcriptional regulator BetI; Validated; Region: PRK00767 208963017550 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 208963017551 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 208963017552 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 208963017553 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 208963017554 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 208963017555 Walker A/P-loop; other site 208963017556 ATP binding site [chemical binding]; other site 208963017557 Q-loop/lid; other site 208963017558 ABC transporter signature motif; other site 208963017559 Walker B; other site 208963017560 D-loop; other site 208963017561 H-loop/switch region; other site 208963017562 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963017563 dimer interface [polypeptide binding]; other site 208963017564 conserved gate region; other site 208963017565 putative PBP binding loops; other site 208963017566 ABC-ATPase subunit interface; other site 208963017567 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 208963017568 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 208963017569 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 208963017570 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 208963017571 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 208963017572 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 208963017573 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 208963017574 conserved cys residue [active] 208963017575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963017576 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 208963017577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963017578 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 208963017579 putative dimerization interface [polypeptide binding]; other site 208963017580 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 208963017581 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 208963017582 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 208963017583 active site 208963017584 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 208963017585 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 208963017586 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 208963017587 Uncharacterized conserved protein [Function unknown]; Region: COG3246 208963017588 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 208963017589 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 208963017590 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 208963017591 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 208963017592 conserved cys residue [active] 208963017593 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 208963017594 acetylornithine deacetylase; Provisional; Region: PRK07522 208963017595 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 208963017596 metal binding site [ion binding]; metal-binding site 208963017597 putative dimer interface [polypeptide binding]; other site 208963017598 Uncharacterized conserved protein [Function unknown]; Region: COG3342 208963017599 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 208963017600 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 208963017601 homotrimer interaction site [polypeptide binding]; other site 208963017602 putative active site [active] 208963017603 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963017604 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 208963017605 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 208963017606 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 208963017607 putative active site [active] 208963017608 catalytic site [active] 208963017609 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 208963017610 putative active site [active] 208963017611 catalytic site [active] 208963017612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 208963017613 SnoaL-like domain; Region: SnoaL_2; pfam12680 208963017614 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 208963017615 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 208963017616 active site 208963017617 V4R domain; Region: V4R; cl15268 208963017618 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 208963017619 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 208963017620 putative active site [active] 208963017621 putative FMN binding site [chemical binding]; other site 208963017622 putative substrate binding site [chemical binding]; other site 208963017623 putative catalytic residue [active] 208963017624 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 208963017625 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 208963017626 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 208963017627 Cysteine-rich domain; Region: CCG; pfam02754 208963017628 Cysteine-rich domain; Region: CCG; pfam02754 208963017629 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 208963017630 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 208963017631 Ligand Binding Site [chemical binding]; other site 208963017632 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 208963017633 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 208963017634 Ligand Binding Site [chemical binding]; other site 208963017635 Electron transfer flavoprotein domain; Region: ETF; pfam01012 208963017636 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 208963017637 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 208963017638 non-specific DNA binding site [nucleotide binding]; other site 208963017639 salt bridge; other site 208963017640 sequence-specific DNA binding site [nucleotide binding]; other site 208963017641 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 208963017642 Cell division protein ZapA; Region: ZapA; pfam05164 208963017643 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 208963017644 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 208963017645 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 208963017646 [2Fe-2S] cluster binding site [ion binding]; other site 208963017647 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 208963017648 putative alpha subunit interface [polypeptide binding]; other site 208963017649 putative active site [active] 208963017650 putative substrate binding site [chemical binding]; other site 208963017651 Fe binding site [ion binding]; other site 208963017652 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 208963017653 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 208963017654 FAD binding pocket [chemical binding]; other site 208963017655 FAD binding motif [chemical binding]; other site 208963017656 phosphate binding motif [ion binding]; other site 208963017657 beta-alpha-beta structure motif; other site 208963017658 NAD binding pocket [chemical binding]; other site 208963017659 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 208963017660 catalytic loop [active] 208963017661 iron binding site [ion binding]; other site 208963017662 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 208963017663 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 208963017664 tetramer interface [polypeptide binding]; other site 208963017665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963017666 catalytic residue [active] 208963017667 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 208963017668 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 208963017669 dimer interface [polypeptide binding]; other site 208963017670 active site 208963017671 glycine-pyridoxal phosphate binding site [chemical binding]; other site 208963017672 folate binding site [chemical binding]; other site 208963017673 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 208963017674 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 208963017675 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 208963017676 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 208963017677 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 208963017678 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 208963017679 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 208963017680 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 208963017681 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 208963017682 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 208963017683 putative active site [active] 208963017684 putative substrate binding site [chemical binding]; other site 208963017685 putative cosubstrate binding site; other site 208963017686 catalytic site [active] 208963017687 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 208963017688 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 208963017689 NAD binding site [chemical binding]; other site 208963017690 catalytic Zn binding site [ion binding]; other site 208963017691 structural Zn binding site [ion binding]; other site 208963017692 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 208963017693 active site 208963017694 phosphate binding residues; other site 208963017695 catalytic residues [active] 208963017696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3495 208963017697 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 208963017698 ATP-grasp domain; Region: ATP-grasp; pfam02222 208963017699 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 208963017700 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 208963017701 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 208963017702 NAD binding site [chemical binding]; other site 208963017703 substrate binding site [chemical binding]; other site 208963017704 catalytic Zn binding site [ion binding]; other site 208963017705 tetramer interface [polypeptide binding]; other site 208963017706 structural Zn binding site [ion binding]; other site 208963017707 cell density-dependent motility repressor; Provisional; Region: PRK10082 208963017708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963017709 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 208963017710 dimerization interface [polypeptide binding]; other site 208963017711 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 208963017712 Aspartase; Region: Aspartase; cd01357 208963017713 active sites [active] 208963017714 tetramer interface [polypeptide binding]; other site 208963017715 Sulphur transport; Region: Sulf_transp; pfam04143 208963017716 Predicted transporter component [General function prediction only]; Region: COG2391 208963017717 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 208963017718 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963017719 DNA-binding site [nucleotide binding]; DNA binding site 208963017720 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 208963017721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963017722 homodimer interface [polypeptide binding]; other site 208963017723 catalytic residue [active] 208963017724 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963017725 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 208963017726 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963017727 tryptophan permease; Provisional; Region: PRK10483 208963017728 aromatic amino acid transport protein; Region: araaP; TIGR00837 208963017729 pyruvate carboxylase subunit B; Validated; Region: PRK09282 208963017730 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 208963017731 active site 208963017732 catalytic residues [active] 208963017733 metal binding site [ion binding]; metal-binding site 208963017734 homodimer binding site [polypeptide binding]; other site 208963017735 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 208963017736 carboxyltransferase (CT) interaction site; other site 208963017737 biotinylation site [posttranslational modification]; other site 208963017738 pyruvate carboxylase subunit A; Validated; Region: PRK07178 208963017739 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 208963017740 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 208963017741 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 208963017742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 208963017743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 208963017744 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 208963017745 putative dimerization interface [polypeptide binding]; other site 208963017746 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 208963017747 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 208963017748 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 208963017749 putative active site [active] 208963017750 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 208963017751 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 208963017752 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 208963017753 putative protease; Provisional; Region: PRK15452 208963017754 Peptidase family U32; Region: Peptidase_U32; pfam01136 208963017755 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 208963017756 PAS fold; Region: PAS_3; pfam08447 208963017757 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 208963017758 heme pocket [chemical binding]; other site 208963017759 putative active site [active] 208963017760 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 208963017761 PAS domain; Region: PAS_9; pfam13426 208963017762 putative active site [active] 208963017763 heme pocket [chemical binding]; other site 208963017764 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963017765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963017766 metal binding site [ion binding]; metal-binding site 208963017767 active site 208963017768 I-site; other site 208963017769 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 208963017770 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 208963017771 Part of AAA domain; Region: AAA_19; pfam13245 208963017772 Family description; Region: UvrD_C_2; pfam13538 208963017773 Predicted membrane protein [Function unknown]; Region: COG2510 208963017774 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 208963017775 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 208963017776 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 208963017777 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 208963017778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963017779 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 208963017780 putative ADP-binding pocket [chemical binding]; other site 208963017781 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 208963017782 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963017783 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 208963017784 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963017785 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 208963017786 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 208963017787 Walker A/P-loop; other site 208963017788 ATP binding site [chemical binding]; other site 208963017789 Q-loop/lid; other site 208963017790 ABC transporter signature motif; other site 208963017791 Walker B; other site 208963017792 D-loop; other site 208963017793 H-loop/switch region; other site 208963017794 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 208963017795 putative carbohydrate binding site [chemical binding]; other site 208963017796 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 208963017797 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 208963017798 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 208963017799 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 208963017800 Substrate binding site; other site 208963017801 Cupin domain; Region: Cupin_2; cl17218 208963017802 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 208963017803 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 208963017804 NADP-binding site; other site 208963017805 homotetramer interface [polypeptide binding]; other site 208963017806 substrate binding site [chemical binding]; other site 208963017807 homodimer interface [polypeptide binding]; other site 208963017808 active site 208963017809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963017810 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 208963017811 NAD(P) binding site [chemical binding]; other site 208963017812 active site 208963017813 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963017814 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 208963017815 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 208963017816 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 208963017817 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 208963017818 Methyltransferase domain; Region: Methyltransf_31; pfam13847 208963017819 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 208963017820 S-adenosylmethionine binding site [chemical binding]; other site 208963017821 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 208963017822 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 208963017823 Methyltransferase domain; Region: Methyltransf_11; pfam08241 208963017824 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 208963017825 conserverd hypothetical protein; Region: TIGR02448 208963017826 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 208963017827 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 208963017828 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 208963017829 Uncharacterized conserved protein [Function unknown]; Region: COG3791 208963017830 Predicted permeases [General function prediction only]; Region: COG0679 208963017831 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 208963017832 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 208963017833 Citrate transporter; Region: CitMHS; pfam03600 208963017834 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 208963017835 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 208963017836 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 208963017837 hypothetical protein; Reviewed; Region: PRK09588 208963017838 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 208963017839 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 208963017840 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 208963017841 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 208963017842 PhoU domain; Region: PhoU; pfam01895 208963017843 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 208963017844 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 208963017845 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 208963017846 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 208963017847 citrate-proton symporter; Provisional; Region: PRK15075 208963017848 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963017849 putative substrate translocation pore; other site 208963017850 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 208963017851 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 208963017852 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 208963017853 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 208963017854 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 208963017855 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 208963017856 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963017857 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963017858 active site 208963017859 phosphorylation site [posttranslational modification] 208963017860 intermolecular recognition site; other site 208963017861 dimerization interface [polypeptide binding]; other site 208963017862 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 208963017863 Walker A motif; other site 208963017864 ATP binding site [chemical binding]; other site 208963017865 Walker B motif; other site 208963017866 arginine finger; other site 208963017867 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963017868 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 208963017869 dimerization interface [polypeptide binding]; other site 208963017870 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 208963017871 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 208963017872 putative active site [active] 208963017873 heme pocket [chemical binding]; other site 208963017874 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 208963017875 dimer interface [polypeptide binding]; other site 208963017876 phosphorylation site [posttranslational modification] 208963017877 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963017878 ATP binding site [chemical binding]; other site 208963017879 Mg2+ binding site [ion binding]; other site 208963017880 G-X-G motif; other site 208963017881 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 208963017882 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 208963017883 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 208963017884 amidase catalytic site [active] 208963017885 Zn binding residues [ion binding]; other site 208963017886 substrate binding site [chemical binding]; other site 208963017887 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 208963017888 MarC family integral membrane protein; Region: MarC; cl00919 208963017889 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 208963017890 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 208963017891 metal binding site [ion binding]; metal-binding site 208963017892 active site 208963017893 I-site; other site 208963017894 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 208963017895 putative catalytic site [active] 208963017896 putative metal binding site [ion binding]; other site 208963017897 putative phosphate binding site [ion binding]; other site 208963017898 putative catalytic site [active] 208963017899 putative phosphate binding site [ion binding]; other site 208963017900 putative metal binding site [ion binding]; other site 208963017901 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 208963017902 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 208963017903 catalytic residues [active] 208963017904 hinge region; other site 208963017905 alpha helical domain; other site 208963017906 Cytochrome c553 [Energy production and conversion]; Region: COG2863 208963017907 Cytochrome c; Region: Cytochrom_C; cl11414 208963017908 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 208963017909 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 208963017910 G1 box; other site 208963017911 GTP/Mg2+ binding site [chemical binding]; other site 208963017912 Switch I region; other site 208963017913 G2 box; other site 208963017914 G3 box; other site 208963017915 Switch II region; other site 208963017916 G4 box; other site 208963017917 G5 box; other site 208963017918 DNA polymerase I; Provisional; Region: PRK05755 208963017919 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 208963017920 active site 208963017921 metal binding site 1 [ion binding]; metal-binding site 208963017922 putative 5' ssDNA interaction site; other site 208963017923 metal binding site 3; metal-binding site 208963017924 metal binding site 2 [ion binding]; metal-binding site 208963017925 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 208963017926 putative DNA binding site [nucleotide binding]; other site 208963017927 putative metal binding site [ion binding]; other site 208963017928 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 208963017929 active site 208963017930 catalytic site [active] 208963017931 substrate binding site [chemical binding]; other site 208963017932 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 208963017933 active site 208963017934 DNA binding site [nucleotide binding] 208963017935 catalytic site [active] 208963017936 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 208963017937 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 208963017938 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 208963017939 putative active site [active] 208963017940 putative substrate binding site [chemical binding]; other site 208963017941 ATP binding site [chemical binding]; other site 208963017942 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 208963017943 TSCPD domain; Region: TSCPD; pfam12637 208963017944 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 208963017945 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 208963017946 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 208963017947 active site 208963017948 dimer interface [polypeptide binding]; other site 208963017949 effector binding site; other site 208963017950 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 208963017951 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 208963017952 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 208963017953 metal binding site [ion binding]; metal-binding site 208963017954 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 208963017955 Predicted transcriptional regulators [Transcription]; Region: COG1695 208963017956 metal binding site 2 [ion binding]; metal-binding site 208963017957 putative DNA binding helix; other site 208963017958 metal binding site 1 [ion binding]; metal-binding site 208963017959 dimer interface [polypeptide binding]; other site 208963017960 structural Zn2+ binding site [ion binding]; other site 208963017961 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 208963017962 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 208963017963 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 208963017964 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 208963017965 dimer interface [polypeptide binding]; other site 208963017966 putative PBP binding regions; other site 208963017967 ABC-ATPase subunit interface; other site 208963017968 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 208963017969 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 208963017970 Walker A/P-loop; other site 208963017971 ATP binding site [chemical binding]; other site 208963017972 Q-loop/lid; other site 208963017973 ABC transporter signature motif; other site 208963017974 Walker B; other site 208963017975 D-loop; other site 208963017976 H-loop/switch region; other site 208963017977 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 208963017978 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 208963017979 dimer interface [polypeptide binding]; other site 208963017980 conserved gate region; other site 208963017981 ABC-ATPase subunit interface; other site 208963017982 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 208963017983 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 208963017984 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 208963017985 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 208963017986 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 208963017987 putative active site [active] 208963017988 Isochorismatase family; Region: Isochorismatase; pfam00857 208963017989 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 208963017990 catalytic triad [active] 208963017991 conserved cis-peptide bond; other site 208963017992 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 208963017993 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963017994 N-formylglutamate amidohydrolase; Region: FGase; cl01522 208963017995 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 208963017996 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 208963017997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 208963017998 active site 208963017999 phosphorylation site [posttranslational modification] 208963018000 intermolecular recognition site; other site 208963018001 dimerization interface [polypeptide binding]; other site 208963018002 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 208963018003 Walker A motif; other site 208963018004 ATP binding site [chemical binding]; other site 208963018005 Walker B motif; other site 208963018006 arginine finger; other site 208963018007 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 208963018008 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 208963018009 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 208963018010 dimer interface [polypeptide binding]; other site 208963018011 phosphorylation site [posttranslational modification] 208963018012 Histidine kinase-like ATPases; This family includes several ATP-binding 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 208963018013 ATP binding site [chemical binding]; other site 208963018014 Mg2+ binding site [ion binding]; other site 208963018015 G-X-G motif; other site 208963018016 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 208963018017 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 208963018018 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 208963018019 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 208963018020 pyridoxamine kinase; Validated; Region: PRK05756 208963018021 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 208963018022 pyridoxal binding site [chemical binding]; other site 208963018023 dimer interface [polypeptide binding]; other site 208963018024 ATP binding site [chemical binding]; other site 208963018025 Predicted membrane protein [Function unknown]; Region: COG1238 208963018026 putative cation:proton antiport protein; Provisional; Region: PRK10669 208963018027 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 208963018028 TrkA-N domain; Region: TrkA_N; pfam02254 208963018029 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 208963018030 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963018031 classical (c) SDRs; Region: SDR_c; cd05233 208963018032 NAD(P) binding site [chemical binding]; other site 208963018033 active site 208963018034 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 208963018035 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 208963018036 aminotransferase; Validated; Region: PRK07046 208963018037 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 208963018038 inhibitor-cofactor binding pocket; inhibition site 208963018039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 208963018040 catalytic residue [active] 208963018041 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 208963018042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 208963018043 NAD(P) binding site [chemical binding]; other site 208963018044 active site 208963018045 Transcriptional regulators [Transcription]; Region: GntR; COG1802 208963018046 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 208963018047 DNA-binding site [nucleotide binding]; DNA binding site 208963018048 FCD domain; Region: FCD; pfam07729 208963018049 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 208963018050 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 208963018051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 208963018052 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 208963018053 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 208963018054 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 208963018055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963018056 putative substrate translocation pore; other site 208963018057 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 208963018058 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 208963018059 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 208963018060 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 208963018061 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 208963018062 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 208963018063 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 208963018064 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 208963018065 AMIN domain; Region: AMIN; pfam11741 208963018066 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 208963018067 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 208963018068 active site 208963018069 metal binding site [ion binding]; metal-binding site 208963018070 putative GTP cyclohydrolase; Provisional; Region: PRK13674 208963018071 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 208963018072 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 208963018073 trimer interface [polypeptide binding]; other site 208963018074 active site 208963018075 dihydroorotase; Reviewed; Region: PRK09236 208963018076 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 208963018077 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 208963018078 active site 208963018079 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 208963018080 Beta-lactamase; Region: Beta-lactamase; pfam00144 208963018081 Uncharacterized conserved protein [Function unknown]; Region: COG4729 208963018082 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 208963018083 DctM-like transporters; Region: DctM; pfam06808 208963018084 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 208963018085 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 208963018086 substrate binding pocket [chemical binding]; other site 208963018087 membrane-bound complex binding site; other site 208963018088 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 208963018089 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 208963018090 S-adenosylmethionine binding site [chemical binding]; other site 208963018091 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 208963018092 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 208963018093 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 208963018094 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 208963018095 putative substrate translocation pore; other site 208963018096 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 208963018097 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 208963018098 glutaminase active site [active] 208963018099 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 208963018100 dimer interface [polypeptide binding]; other site 208963018101 active site 208963018102 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 208963018103 dimer interface [polypeptide binding]; other site 208963018104 active site 208963018105 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 208963018106 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 208963018107 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 208963018108 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 208963018109 Peptidase family M23; Region: Peptidase_M23; pfam01551 208963018110 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 208963018111 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 208963018112 Substrate binding site; other site 208963018113 Mg++ binding site; other site 208963018114 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 208963018115 active site 208963018116 substrate binding site [chemical binding]; other site 208963018117 CoA binding site [chemical binding]; other site 208963018118 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 208963018119 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 208963018120 gamma subunit interface [polypeptide binding]; other site 208963018121 epsilon subunit interface [polypeptide binding]; other site 208963018122 LBP interface [polypeptide binding]; other site 208963018123 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 208963018124 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 208963018125 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 208963018126 alpha subunit interaction interface [polypeptide binding]; other site 208963018127 Walker A motif; other site 208963018128 ATP binding site [chemical binding]; other site 208963018129 Walker B motif; other site 208963018130 inhibitor binding site; inhibition site 208963018131 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 208963018132 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 208963018133 core domain interface [polypeptide binding]; other site 208963018134 delta subunit interface [polypeptide binding]; other site 208963018135 epsilon subunit interface [polypeptide binding]; other site 208963018136 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 208963018137 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 208963018138 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 208963018139 beta subunit interaction interface [polypeptide binding]; other site 208963018140 Walker A motif; other site 208963018141 ATP binding site [chemical binding]; other site 208963018142 Walker B motif; other site 208963018143 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 208963018144 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 208963018145 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 208963018146 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 208963018147 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 208963018148 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 208963018149 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 208963018150 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 208963018151 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 208963018152 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 208963018153 ParB-like nuclease domain; Region: ParBc; pfam02195 208963018154 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 208963018155 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 208963018156 P-loop; other site 208963018157 Magnesium ion binding site [ion binding]; other site 208963018158 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 208963018159 Magnesium ion binding site [ion binding]; other site 208963018160 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 208963018161 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 208963018162 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 208963018163 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 208963018164 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 208963018165 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 208963018166 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 208963018167 trmE is a tRNA modification GTPase; Region: trmE; cd04164 208963018168 G1 box; other site 208963018169 GTP/Mg2+ binding site [chemical binding]; other site 208963018170 Switch I region; other site 208963018171 G2 box; other site 208963018172 Switch II region; other site 208963018173 G3 box; other site 208963018174 G4 box; other site 208963018175 G5 box; other site 208963018176 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 208963018177 membrane protein insertase; Provisional; Region: PRK01318 208963018178 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 208963018179 ribonuclease P; Reviewed; Region: rnpA; PRK00396