-- dump date 20140620_004022 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1089456000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1089456000002 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 1089456000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1089456000004 Walker A motif; other site 1089456000005 ATP binding site [chemical binding]; other site 1089456000006 Walker B motif; other site 1089456000007 arginine finger; other site 1089456000008 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 1089456000009 DnaA box-binding interface [nucleotide binding]; other site 1089456000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1089456000011 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 1089456000012 putative DNA binding surface [nucleotide binding]; other site 1089456000013 dimer interface [polypeptide binding]; other site 1089456000014 beta-clamp/clamp loader binding surface; other site 1089456000015 beta-clamp/translesion DNA polymerase binding surface; other site 1089456000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1089456000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456000018 Walker A/P-loop; other site 1089456000019 ATP binding site [chemical binding]; other site 1089456000020 Q-loop/lid; other site 1089456000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456000022 ABC transporter signature motif; other site 1089456000023 Walker B; other site 1089456000024 D-loop; other site 1089456000025 H-loop/switch region; other site 1089456000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1089456000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456000028 Mg2+ binding site [ion binding]; other site 1089456000029 G-X-G motif; other site 1089456000030 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 1089456000031 anchoring element; other site 1089456000032 dimer interface [polypeptide binding]; other site 1089456000033 ATP binding site [chemical binding]; other site 1089456000034 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 1089456000035 active site 1089456000036 putative metal-binding site [ion binding]; other site 1089456000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1089456000038 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1089456000039 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1089456000040 putative acyl-acceptor binding pocket; other site 1089456000041 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1089456000042 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 1089456000043 active site 1089456000044 motif I; other site 1089456000045 motif II; other site 1089456000046 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1089456000047 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 1089456000048 dimer interface [polypeptide binding]; other site 1089456000049 motif 1; other site 1089456000050 active site 1089456000051 motif 2; other site 1089456000052 motif 3; other site 1089456000053 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1089456000054 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1089456000055 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1089456000056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1089456000057 putative acyl-acceptor binding pocket; other site 1089456000058 PilZ domain; Region: PilZ; cl01260 1089456000059 hypothetical protein; Provisional; Region: PRK11212 1089456000060 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 1089456000061 TPR motif; other site 1089456000062 TPR repeat; Region: TPR_11; pfam13414 1089456000063 binding surface 1089456000064 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1089456000065 TrkA-N domain; Region: TrkA_N; pfam02254 1089456000066 TrkA-C domain; Region: TrkA_C; pfam02080 1089456000067 TrkA-N domain; Region: TrkA_N; pfam02254 1089456000068 TrkA-C domain; Region: TrkA_C; pfam02080 1089456000069 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1089456000070 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 1089456000071 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 1089456000072 S-adenosylmethionine binding site [chemical binding]; other site 1089456000073 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1089456000074 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1089456000075 putative active site [active] 1089456000076 substrate binding site [chemical binding]; other site 1089456000077 putative cosubstrate binding site; other site 1089456000078 catalytic site [active] 1089456000079 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1089456000080 substrate binding site [chemical binding]; other site 1089456000081 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 1089456000082 active site 1089456000083 catalytic residues [active] 1089456000084 metal binding site [ion binding]; metal-binding site 1089456000085 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1089456000086 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456000087 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1089456000088 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1089456000089 DNA protecting protein DprA; Region: dprA; TIGR00732 1089456000090 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1089456000091 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1089456000092 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1089456000093 NADP binding site [chemical binding]; other site 1089456000094 dimer interface [polypeptide binding]; other site 1089456000095 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1089456000096 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1089456000097 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1089456000098 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1089456000099 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1089456000100 shikimate binding site; other site 1089456000101 NAD(P) binding site [chemical binding]; other site 1089456000102 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 1089456000103 Zn binding site [ion binding]; other site 1089456000104 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1089456000105 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1089456000106 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1089456000107 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1089456000108 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1089456000109 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 1089456000110 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1089456000111 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1089456000112 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1089456000113 Sulfatase; Region: Sulfatase; cl17466 1089456000114 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1089456000115 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1089456000116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000117 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 1089456000118 dimerization interface [polypeptide binding]; other site 1089456000119 substrate binding pocket [chemical binding]; other site 1089456000120 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1089456000121 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 1089456000122 putative binding surface; other site 1089456000123 active site 1089456000124 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456000125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456000126 active site 1089456000127 phosphorylation site [posttranslational modification] 1089456000128 intermolecular recognition site; other site 1089456000129 dimerization interface [polypeptide binding]; other site 1089456000130 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 1089456000131 DNA binding residues [nucleotide binding] 1089456000132 dimerization interface [polypeptide binding]; other site 1089456000133 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 1089456000134 substrate binding site [chemical binding]; other site 1089456000135 active site 1089456000136 catalytic residues [active] 1089456000137 heterodimer interface [polypeptide binding]; other site 1089456000138 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1089456000139 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 1089456000140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456000141 catalytic residue [active] 1089456000142 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456000143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000144 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 1089456000145 dimerization interface [polypeptide binding]; other site 1089456000146 Dodecin; Region: Dodecin; pfam07311 1089456000147 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1089456000148 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1089456000149 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1089456000150 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1089456000151 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1089456000152 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1089456000153 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1089456000154 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1089456000155 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1089456000156 MafB19-like deaminase; Region: MafB19-deam; pfam14437 1089456000157 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1089456000158 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 1089456000159 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1089456000160 ParB-like nuclease domain; Region: ParB; smart00470 1089456000161 HTH-like domain; Region: HTH_21; pfam13276 1089456000162 Integrase core domain; Region: rve; pfam00665 1089456000163 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1089456000164 Integrase core domain; Region: rve_3; pfam13683 1089456000165 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1089456000166 Transposase; Region: HTH_Tnp_1; pfam01527 1089456000167 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 1089456000168 Predicted membrane protein [Function unknown]; Region: COG3174 1089456000169 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1089456000170 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 1089456000171 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 1089456000172 switch II binding region; other site 1089456000173 Rac1 P-loop interaction site [polypeptide binding]; other site 1089456000174 GTP binding residues [chemical binding]; other site 1089456000175 switch I binding region; other site 1089456000176 ADP-ribosyltransferase exoenzyme; Region: ADPrib_exo_Tox; pfam03496 1089456000177 active site 1089456000178 conformational flexibility of ligand binding pocket; other site 1089456000179 ADP-ribosylating toxin turn-turn motif; other site 1089456000180 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 1089456000181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1089456000182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 1089456000183 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 1089456000184 sequence-specific DNA binding site [nucleotide binding]; other site 1089456000185 salt bridge; other site 1089456000186 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 1089456000187 active site 1089456000188 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1089456000189 dimer interface [polypeptide binding]; other site 1089456000190 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 1089456000191 Ligand Binding Site [chemical binding]; other site 1089456000192 Molecular Tunnel; other site 1089456000193 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1089456000194 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 1089456000195 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 1089456000196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3812 1089456000197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000199 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 1089456000200 putative effector binding pocket; other site 1089456000201 dimerization interface [polypeptide binding]; other site 1089456000202 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1089456000203 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1089456000204 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 1089456000205 catalytic residues [active] 1089456000206 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1089456000207 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1089456000208 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 1089456000209 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1089456000210 Eukaryotic phosphomannomutase; Region: PMM; cl17107 1089456000211 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 1089456000212 motif II; other site 1089456000213 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1089456000214 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 1089456000215 trimer interface [polypeptide binding]; other site 1089456000216 putative metal binding site [ion binding]; other site 1089456000217 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1089456000218 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1089456000219 active site 1089456000220 Zn binding site [ion binding]; other site 1089456000221 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1089456000222 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1089456000223 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 1089456000224 FeS/SAM binding site; other site 1089456000225 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1089456000226 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1089456000227 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1089456000228 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456000229 Walker A/P-loop; other site 1089456000230 ATP binding site [chemical binding]; other site 1089456000231 Q-loop/lid; other site 1089456000232 ABC transporter signature motif; other site 1089456000233 Walker B; other site 1089456000234 D-loop; other site 1089456000235 H-loop/switch region; other site 1089456000236 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1089456000237 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1089456000238 active site 1089456000239 ATP binding site [chemical binding]; other site 1089456000240 substrate binding site [chemical binding]; other site 1089456000241 activation loop (A-loop); other site 1089456000242 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 1089456000243 metal ion-dependent adhesion site (MIDAS); other site 1089456000244 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 1089456000245 active site 1089456000246 Protein phosphatase 2C; Region: PP2C; pfam00481 1089456000247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SciT; COG3913 1089456000248 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1089456000249 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1089456000250 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1089456000251 hypothetical protein; Provisional; Region: PRK07033 1089456000252 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1089456000253 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456000254 ligand binding site [chemical binding]; other site 1089456000255 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1089456000256 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1089456000257 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 1089456000258 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 1089456000259 phosphopeptide binding site; other site 1089456000260 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1089456000261 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1089456000262 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1089456000263 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1089456000264 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1089456000265 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1089456000266 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1089456000267 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 1089456000268 ImpE protein; Region: ImpE; pfam07024 1089456000269 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 1089456000270 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1089456000271 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1089456000272 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1089456000273 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1089456000274 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 1089456000275 Walker A motif; other site 1089456000276 ATP binding site [chemical binding]; other site 1089456000277 Walker B motif; other site 1089456000278 arginine finger; other site 1089456000279 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 1089456000280 Walker A motif; other site 1089456000281 ATP binding site [chemical binding]; other site 1089456000282 Walker B motif; other site 1089456000283 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1089456000284 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1089456000285 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456000286 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456000287 PAAR motif; Region: PAAR_motif; pfam05488 1089456000288 Uncharacterized conserved protein [Function unknown]; Region: COG5435 1089456000289 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1089456000290 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456000291 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456000292 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1089456000293 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1089456000294 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1089456000295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5351 1089456000296 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 1089456000297 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 1089456000298 active site 1089456000299 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1089456000300 conserved hypothetical protein; Region: TIGR02270 1089456000301 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 1089456000302 active site clefts [active] 1089456000303 zinc binding site [ion binding]; other site 1089456000304 dimer interface [polypeptide binding]; other site 1089456000305 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1089456000306 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1089456000307 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1089456000308 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 1089456000309 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1089456000310 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1089456000311 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1089456000312 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456000313 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456000314 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1089456000315 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 1089456000316 Subunit I/III interface [polypeptide binding]; other site 1089456000317 D-pathway; other site 1089456000318 Subunit I/VIIc interface [polypeptide binding]; other site 1089456000319 Subunit I/IV interface [polypeptide binding]; other site 1089456000320 Subunit I/II interface [polypeptide binding]; other site 1089456000321 Low-spin heme (heme a) binding site [chemical binding]; other site 1089456000322 Subunit I/VIIa interface [polypeptide binding]; other site 1089456000323 Subunit I/VIa interface [polypeptide binding]; other site 1089456000324 Dimer interface; other site 1089456000325 Putative water exit pathway; other site 1089456000326 Binuclear center (heme a3/CuB) [ion binding]; other site 1089456000327 K-pathway; other site 1089456000328 Subunit I/Vb interface [polypeptide binding]; other site 1089456000329 Putative proton exit pathway; other site 1089456000330 Subunit I/VIb interface; other site 1089456000331 Subunit I/VIc interface [polypeptide binding]; other site 1089456000332 Electron transfer pathway; other site 1089456000333 Subunit I/VIIIb interface [polypeptide binding]; other site 1089456000334 Subunit I/VIIb interface [polypeptide binding]; other site 1089456000335 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1089456000336 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 1089456000337 Subunit III/VIIa interface [polypeptide binding]; other site 1089456000338 Phospholipid binding site [chemical binding]; other site 1089456000339 Subunit I/III interface [polypeptide binding]; other site 1089456000340 Subunit III/VIb interface [polypeptide binding]; other site 1089456000341 Subunit III/VIa interface; other site 1089456000342 Subunit III/Vb interface [polypeptide binding]; other site 1089456000343 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1089456000344 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 1089456000345 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1089456000346 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1089456000347 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1089456000348 UbiA prenyltransferase family; Region: UbiA; pfam01040 1089456000349 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 1089456000350 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1089456000351 Cu(I) binding site [ion binding]; other site 1089456000352 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1089456000353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456000354 Coenzyme A binding pocket [chemical binding]; other site 1089456000355 Predicted transcriptional regulators [Transcription]; Region: COG1733 1089456000356 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1089456000357 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1089456000358 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1089456000359 putative NAD(P) binding site [chemical binding]; other site 1089456000360 active site 1089456000361 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1089456000362 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 1089456000363 putative catalytic residue [active] 1089456000364 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1089456000365 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1089456000366 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1089456000367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456000368 DNA-binding site [nucleotide binding]; DNA binding site 1089456000369 FCD domain; Region: FCD; pfam07729 1089456000370 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1089456000371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1089456000372 DNA-binding site [nucleotide binding]; DNA binding site 1089456000373 FCD domain; Region: FCD; pfam07729 1089456000374 Aegerolysin; Region: Aegerolysin; pfam06355 1089456000375 transcriptional regulator; Provisional; Region: PRK10632 1089456000376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000377 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 1089456000378 putative effector binding pocket; other site 1089456000379 dimerization interface [polypeptide binding]; other site 1089456000380 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1089456000381 Predicted transcriptional regulator [Transcription]; Region: COG3905 1089456000382 Water Stress and Hypersensitive response; Region: WHy; smart00769 1089456000383 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1089456000384 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1089456000385 PhnA protein; Region: PhnA; pfam03831 1089456000386 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1089456000387 Spore germination protein; Region: Spore_permease; cl17796 1089456000388 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1089456000389 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1089456000390 tetrameric interface [polypeptide binding]; other site 1089456000391 NAD binding site [chemical binding]; other site 1089456000392 catalytic residues [active] 1089456000393 Cupin domain; Region: Cupin_2; cl17218 1089456000394 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1089456000395 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 1089456000396 inhibitor-cofactor binding pocket; inhibition site 1089456000397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456000398 catalytic residue [active] 1089456000399 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000401 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1089456000402 dimerization interface [polypeptide binding]; other site 1089456000403 guanine deaminase; Provisional; Region: PRK09228 1089456000404 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 1089456000405 active site 1089456000406 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1089456000407 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1089456000408 Walker A/P-loop; other site 1089456000409 ATP binding site [chemical binding]; other site 1089456000410 Q-loop/lid; other site 1089456000411 ABC transporter signature motif; other site 1089456000412 Walker B; other site 1089456000413 D-loop; other site 1089456000414 H-loop/switch region; other site 1089456000415 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1089456000416 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1089456000417 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 1089456000418 TM-ABC transporter signature motif; other site 1089456000419 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1089456000420 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 1089456000421 TM-ABC transporter signature motif; other site 1089456000422 peroxiredoxin; Region: AhpC; TIGR03137 1089456000423 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 1089456000424 dimer interface [polypeptide binding]; other site 1089456000425 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1089456000426 catalytic triad [active] 1089456000427 peroxidatic and resolving cysteines [active] 1089456000428 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1089456000429 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 1089456000430 catalytic residue [active] 1089456000431 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 1089456000432 catalytic residues [active] 1089456000433 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456000434 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456000435 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1089456000436 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1089456000437 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 1089456000438 active site 1089456000439 putative substrate binding pocket [chemical binding]; other site 1089456000440 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 1089456000441 active site 1089456000442 tetramer interface [polypeptide binding]; other site 1089456000443 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 1089456000444 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1089456000445 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1089456000446 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1089456000447 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 1089456000448 putative ligand binding site [chemical binding]; other site 1089456000449 oxidase reductase; Provisional; Region: PTZ00273 1089456000450 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1089456000451 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1089456000452 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1089456000453 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 1089456000454 active site 1089456000455 purine riboside binding site [chemical binding]; other site 1089456000456 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1089456000457 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456000458 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 1089456000459 DNA binding residues [nucleotide binding] 1089456000460 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456000461 FecR protein; Region: FecR; pfam04773 1089456000462 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456000463 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1089456000464 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 1089456000465 N-terminal plug; other site 1089456000466 ligand-binding site [chemical binding]; other site 1089456000467 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1089456000468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000469 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 1089456000470 dimerization interface [polypeptide binding]; other site 1089456000471 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 1089456000472 heterodimer interface [polypeptide binding]; other site 1089456000473 multimer interface [polypeptide binding]; other site 1089456000474 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1089456000475 active site 1089456000476 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1089456000477 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 1089456000478 heterodimer interface [polypeptide binding]; other site 1089456000479 active site 1089456000480 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1089456000481 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1089456000482 Bacterial transcriptional regulator; Region: IclR; pfam01614 1089456000483 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456000484 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456000485 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456000486 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456000487 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456000488 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456000489 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1089456000490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000492 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 1089456000493 putative effector binding pocket; other site 1089456000494 dimerization interface [polypeptide binding]; other site 1089456000495 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456000496 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456000497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456000498 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456000499 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1089456000500 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1089456000501 Nucleoside-binding outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: Tsx; COG3248 1089456000502 xanthine permease; Region: pbuX; TIGR03173 1089456000503 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456000504 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1089456000505 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1089456000506 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1089456000507 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1089456000508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456000509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456000510 metal binding site [ion binding]; metal-binding site 1089456000511 active site 1089456000512 I-site; other site 1089456000513 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 1089456000514 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 1089456000515 dimerization interface [polypeptide binding]; other site 1089456000516 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1089456000517 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1089456000518 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1089456000519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456000520 active site 1089456000521 phosphorylation site [posttranslational modification] 1089456000522 intermolecular recognition site; other site 1089456000523 dimerization interface [polypeptide binding]; other site 1089456000524 CheB methylesterase; Region: CheB_methylest; pfam01339 1089456000525 CheD chemotactic sensory transduction; Region: CheD; cl00810 1089456000526 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1089456000527 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1089456000528 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1089456000529 PAS domain; Region: PAS; smart00091 1089456000530 PAS domain; Region: PAS_9; pfam13426 1089456000531 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456000532 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456000533 dimer interface [polypeptide binding]; other site 1089456000534 putative CheW interface [polypeptide binding]; other site 1089456000535 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 1089456000536 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 1089456000537 putative binding surface; other site 1089456000538 active site 1089456000539 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1089456000540 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1089456000541 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456000542 ATP binding site [chemical binding]; other site 1089456000543 G-X-G motif; other site 1089456000544 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 1089456000545 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456000546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456000547 active site 1089456000548 phosphorylation site [posttranslational modification] 1089456000549 intermolecular recognition site; other site 1089456000550 dimerization interface [polypeptide binding]; other site 1089456000551 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1089456000552 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456000553 putative CheW interface [polypeptide binding]; other site 1089456000554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000556 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 1089456000557 putative effector binding pocket; other site 1089456000558 dimerization interface [polypeptide binding]; other site 1089456000559 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1089456000560 classical (c) SDRs; Region: SDR_c; cd05233 1089456000561 NAD(P) binding site [chemical binding]; other site 1089456000562 active site 1089456000563 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1089456000564 Sulfatase; Region: Sulfatase; pfam00884 1089456000565 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1089456000566 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1089456000567 Walker A/P-loop; other site 1089456000568 ATP binding site [chemical binding]; other site 1089456000569 Q-loop/lid; other site 1089456000570 ABC transporter signature motif; other site 1089456000571 Walker B; other site 1089456000572 D-loop; other site 1089456000573 H-loop/switch region; other site 1089456000574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456000575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456000576 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1089456000577 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1089456000578 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 1089456000579 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1089456000580 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 1089456000581 substrate binding pocket [chemical binding]; other site 1089456000582 active site 1089456000583 iron coordination sites [ion binding]; other site 1089456000584 Predicted permeases [General function prediction only]; Region: COG0679 1089456000585 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456000586 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1089456000587 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1089456000588 active site 1089456000589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000591 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 1089456000592 dimerization interface [polypeptide binding]; other site 1089456000593 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1089456000594 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 1089456000595 N-terminal plug; other site 1089456000596 ligand-binding site [chemical binding]; other site 1089456000597 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1089456000598 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 1089456000599 active site 1089456000600 iron coordination sites [ion binding]; other site 1089456000601 substrate binding pocket [chemical binding]; other site 1089456000602 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1089456000603 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1089456000604 active site 1089456000605 iron coordination sites [ion binding]; other site 1089456000606 substrate binding pocket [chemical binding]; other site 1089456000607 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1089456000608 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1089456000609 ligand binding site [chemical binding]; other site 1089456000610 homodimer interface [polypeptide binding]; other site 1089456000611 NAD(P) binding site [chemical binding]; other site 1089456000612 trimer interface B [polypeptide binding]; other site 1089456000613 trimer interface A [polypeptide binding]; other site 1089456000614 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1089456000615 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1089456000616 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1089456000617 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1089456000618 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1089456000619 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1089456000620 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1089456000621 TolR protein; Region: tolR; TIGR02801 1089456000622 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1089456000623 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1089456000624 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1089456000625 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1089456000626 Coenzyme A transferase; Region: CoA_trans; cl17247 1089456000627 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1089456000628 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1089456000629 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1089456000630 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 1089456000631 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1089456000632 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1089456000633 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1089456000634 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1089456000635 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1089456000636 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1089456000637 Malonate transporter MadL subunit; Region: MadL; cl04273 1089456000638 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1089456000639 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000641 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 1089456000642 putative dimerization interface [polypeptide binding]; other site 1089456000643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000645 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 1089456000646 putative substrate binding pocket [chemical binding]; other site 1089456000647 dimerization interface [polypeptide binding]; other site 1089456000648 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1089456000649 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1089456000650 NAD(P) binding site [chemical binding]; other site 1089456000651 catalytic residues [active] 1089456000652 amino acid transporter; Region: 2A0306; TIGR00909 1089456000653 putative aminotransferase; Provisional; Region: PRK12403 1089456000654 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 1089456000655 inhibitor-cofactor binding pocket; inhibition site 1089456000656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456000657 catalytic residue [active] 1089456000658 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1089456000659 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1089456000660 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1089456000661 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1089456000662 inhibitor site; inhibition site 1089456000663 active site 1089456000664 dimer interface [polypeptide binding]; other site 1089456000665 catalytic residue [active] 1089456000666 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1089456000667 intersubunit interface [polypeptide binding]; other site 1089456000668 active site 1089456000669 Zn2+ binding site [ion binding]; other site 1089456000670 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1089456000671 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 1089456000672 sequence-specific DNA binding site [nucleotide binding]; other site 1089456000673 salt bridge; other site 1089456000674 Cupin domain; Region: Cupin_2; pfam07883 1089456000675 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1089456000676 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1089456000677 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1089456000678 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 1089456000679 dimer interface [polypeptide binding]; other site 1089456000680 active site 1089456000681 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1089456000682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456000683 putative substrate translocation pore; other site 1089456000684 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1089456000685 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1089456000686 tetramer interface [polypeptide binding]; other site 1089456000687 active site 1089456000688 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1089456000689 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1089456000690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000692 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 1089456000693 dimerization interface [polypeptide binding]; other site 1089456000694 benzoate transport; Region: 2A0115; TIGR00895 1089456000695 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456000696 putative substrate translocation pore; other site 1089456000697 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456000698 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1089456000699 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1089456000700 Bacterial transcriptional regulator; Region: IclR; pfam01614 1089456000701 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1089456000702 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1089456000703 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1089456000704 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1089456000705 EamA-like transporter family; Region: EamA; pfam00892 1089456000706 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456000707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456000708 D-galactonate transporter; Region: 2A0114; TIGR00893 1089456000709 putative substrate translocation pore; other site 1089456000710 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1089456000711 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1089456000712 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1089456000713 dimer interface [polypeptide binding]; other site 1089456000714 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1089456000715 active site 1089456000716 Fe binding site [ion binding]; other site 1089456000717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456000718 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456000719 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1089456000720 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1089456000721 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1089456000722 shikimate binding site; other site 1089456000723 NAD(P) binding site [chemical binding]; other site 1089456000724 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 1089456000725 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1089456000726 active site 1089456000727 trimer interface [polypeptide binding]; other site 1089456000728 dimer interface [polypeptide binding]; other site 1089456000729 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456000730 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456000731 putative substrate translocation pore; other site 1089456000732 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456000733 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1089456000734 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456000735 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1089456000736 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456000737 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456000738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456000739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456000740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456000741 Coenzyme A binding pocket [chemical binding]; other site 1089456000742 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 1089456000743 FOG: CBS domain [General function prediction only]; Region: COG0517 1089456000744 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1089456000745 MarR family; Region: MarR_2; cl17246 1089456000746 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1089456000747 Predicted membrane protein [Function unknown]; Region: COG3619 1089456000748 Transposase; Region: HTH_Tnp_1; pfam01527 1089456000749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1089456000750 HTH-like domain; Region: HTH_21; pfam13276 1089456000751 Integrase core domain; Region: rve; pfam00665 1089456000752 Integrase core domain; Region: rve_3; pfam13683 1089456000753 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 1089456000754 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 1089456000755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1089456000756 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456000757 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456000758 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1089456000759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1089456000760 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1089456000761 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 1089456000762 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1089456000763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 1089456000764 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1089456000765 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 1089456000766 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 1089456000767 sequence-specific DNA binding site [nucleotide binding]; other site 1089456000768 salt bridge; other site 1089456000769 Protein of unknown function DUF45; Region: DUF45; pfam01863 1089456000770 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1089456000771 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1089456000772 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 1089456000773 ATP binding site [chemical binding]; other site 1089456000774 putative Mg++ binding site [ion binding]; other site 1089456000775 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1089456000776 metal ion-dependent adhesion site (MIDAS); other site 1089456000777 MoxR-like ATPases [General function prediction only]; Region: COG0714 1089456000778 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 1089456000779 Walker A motif; other site 1089456000780 ATP binding site [chemical binding]; other site 1089456000781 Walker B motif; other site 1089456000782 arginine finger; other site 1089456000783 Virulence protein [General function prediction only]; Region: COG3943 1089456000784 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1089456000785 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1089456000786 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1089456000787 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1089456000788 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1089456000789 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1089456000790 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1089456000791 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1089456000792 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1089456000793 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1089456000794 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1089456000795 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456000796 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1089456000797 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1089456000798 ligand binding site [chemical binding]; other site 1089456000799 NAD binding site [chemical binding]; other site 1089456000800 tetramer interface [polypeptide binding]; other site 1089456000801 catalytic site [active] 1089456000802 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1089456000803 L-serine binding site [chemical binding]; other site 1089456000804 ACT domain interface; other site 1089456000805 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1089456000806 cystine transporter subunit; Provisional; Region: PRK11260 1089456000807 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 1089456000808 substrate binding pocket [chemical binding]; other site 1089456000809 membrane-bound complex binding site; other site 1089456000810 hinge residues; other site 1089456000811 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456000812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456000813 dimer interface [polypeptide binding]; other site 1089456000814 conserved gate region; other site 1089456000815 putative PBP binding loops; other site 1089456000816 ABC-ATPase subunit interface; other site 1089456000817 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1089456000818 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1089456000819 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1089456000820 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1089456000821 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456000822 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1089456000823 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456000824 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456000825 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1089456000826 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 1089456000827 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 1089456000828 active site 1089456000829 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1089456000830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456000831 dimer interface [polypeptide binding]; other site 1089456000832 conserved gate region; other site 1089456000833 putative PBP binding loops; other site 1089456000834 ABC-ATPase subunit interface; other site 1089456000835 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456000836 dimer interface [polypeptide binding]; other site 1089456000837 conserved gate region; other site 1089456000838 putative PBP binding loops; other site 1089456000839 ABC-ATPase subunit interface; other site 1089456000840 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1089456000841 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456000842 Walker A/P-loop; other site 1089456000843 ATP binding site [chemical binding]; other site 1089456000844 Q-loop/lid; other site 1089456000845 ABC transporter signature motif; other site 1089456000846 Walker B; other site 1089456000847 D-loop; other site 1089456000848 H-loop/switch region; other site 1089456000849 TOBE domain; Region: TOBE_2; pfam08402 1089456000850 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1089456000851 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456000852 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1089456000853 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456000854 putative aminotransferase; Validated; Region: PRK07480 1089456000855 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 1089456000856 inhibitor-cofactor binding pocket; inhibition site 1089456000857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456000858 catalytic residue [active] 1089456000859 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1089456000860 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456000861 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1089456000862 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1089456000863 catalytic triad [active] 1089456000864 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1089456000865 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1089456000866 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456000867 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1089456000868 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456000869 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456000870 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456000871 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1089456000872 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1089456000873 putative active site; other site 1089456000874 catalytic triad [active] 1089456000875 putative dimer interface [polypeptide binding]; other site 1089456000876 agmatine deiminase; Provisional; Region: PRK13551 1089456000877 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1089456000878 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456000879 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 1089456000880 PAS fold; Region: PAS_3; pfam08447 1089456000881 putative active site [active] 1089456000882 heme pocket [chemical binding]; other site 1089456000883 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456000884 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456000885 metal binding site [ion binding]; metal-binding site 1089456000886 active site 1089456000887 I-site; other site 1089456000888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000890 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 1089456000891 dimerization interface [polypeptide binding]; other site 1089456000892 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1089456000893 agmatinase; Region: agmatinase; TIGR01230 1089456000894 oligomer interface [polypeptide binding]; other site 1089456000895 putative active site [active] 1089456000896 Mn binding site [ion binding]; other site 1089456000897 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1089456000898 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1089456000899 Na binding site [ion binding]; other site 1089456000900 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1089456000901 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 1089456000902 Di-iron ligands [ion binding]; other site 1089456000903 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 1089456000904 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1089456000905 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 1089456000906 PAS fold; Region: PAS_3; pfam08447 1089456000907 putative active site [active] 1089456000908 heme pocket [chemical binding]; other site 1089456000909 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 1089456000910 PAS domain; Region: PAS_9; pfam13426 1089456000911 putative active site [active] 1089456000912 heme pocket [chemical binding]; other site 1089456000913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456000914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456000915 metal binding site [ion binding]; metal-binding site 1089456000916 active site 1089456000917 I-site; other site 1089456000918 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 1089456000919 Uncharacterized small protein [Function unknown]; Region: COG5583 1089456000920 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1089456000921 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1089456000922 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1089456000923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456000924 dimer interface [polypeptide binding]; other site 1089456000925 conserved gate region; other site 1089456000926 putative PBP binding loops; other site 1089456000927 ABC-ATPase subunit interface; other site 1089456000928 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1089456000929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456000930 dimer interface [polypeptide binding]; other site 1089456000931 conserved gate region; other site 1089456000932 putative PBP binding loops; other site 1089456000933 ABC-ATPase subunit interface; other site 1089456000934 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1089456000935 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1089456000936 Walker A/P-loop; other site 1089456000937 ATP binding site [chemical binding]; other site 1089456000938 Q-loop/lid; other site 1089456000939 ABC transporter signature motif; other site 1089456000940 Walker B; other site 1089456000941 D-loop; other site 1089456000942 H-loop/switch region; other site 1089456000943 TOBE-like domain; Region: TOBE_3; pfam12857 1089456000944 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 1089456000945 dimerization interface [polypeptide binding]; other site 1089456000946 putative DNA binding site [nucleotide binding]; other site 1089456000947 putative Zn2+ binding site [ion binding]; other site 1089456000948 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1089456000949 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1089456000950 Protein of unknown function (DUF962); Region: DUF962; cl01879 1089456000951 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1089456000952 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 1089456000953 ligand binding site [chemical binding]; other site 1089456000954 flexible hinge region; other site 1089456000955 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1089456000956 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1089456000957 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456000958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456000959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456000960 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 1089456000961 substrate binding pocket [chemical binding]; other site 1089456000962 dimerization interface [polypeptide binding]; other site 1089456000963 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1089456000964 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1089456000965 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1089456000966 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1089456000967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456000968 DNA-binding site [nucleotide binding]; DNA binding site 1089456000969 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 1089456000970 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 1089456000971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456000972 homodimer interface [polypeptide binding]; other site 1089456000973 catalytic residue [active] 1089456000974 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456000975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456000976 active site 1089456000977 phosphorylation site [posttranslational modification] 1089456000978 intermolecular recognition site; other site 1089456000979 dimerization interface [polypeptide binding]; other site 1089456000980 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1089456000981 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1089456000982 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 1089456000983 inhibitor-cofactor binding pocket; inhibition site 1089456000984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456000985 catalytic residue [active] 1089456000986 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1089456000987 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1089456000988 tetramerization interface [polypeptide binding]; other site 1089456000989 NAD(P) binding site [chemical binding]; other site 1089456000990 catalytic residues [active] 1089456000991 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1089456000992 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1089456000993 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 1089456000994 active site 1089456000995 DNA binding site [nucleotide binding] 1089456000996 Int/Topo IB signature motif; other site 1089456000997 AsmA family; Region: AsmA; pfam05170 1089456000998 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1089456000999 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1089456001000 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1089456001001 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1089456001002 minor groove reading motif; other site 1089456001003 helix-hairpin-helix signature motif; other site 1089456001004 substrate binding pocket [chemical binding]; other site 1089456001005 active site 1089456001006 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 1089456001007 DNA binding and oxoG recognition site [nucleotide binding] 1089456001008 oxidative damage protection protein; Provisional; Region: PRK05408 1089456001009 putative oxidoreductase; Provisional; Region: PRK11579 1089456001010 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1089456001011 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1089456001012 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1089456001013 integrase; Provisional; Region: PRK09692 1089456001014 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 1089456001015 active site 1089456001016 Int/Topo IB signature motif; other site 1089456001017 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1089456001018 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1089456001019 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1089456001020 Sec63 Brl domain; Region: Sec63; pfam02889 1089456001021 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1089456001022 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1089456001023 putative active site pocket [active] 1089456001024 4-fold oligomerization interface [polypeptide binding]; other site 1089456001025 metal binding residues [ion binding]; metal-binding site 1089456001026 3-fold/trimer interface [polypeptide binding]; other site 1089456001027 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1089456001028 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1089456001029 putative active site [active] 1089456001030 oxyanion strand; other site 1089456001031 catalytic triad [active] 1089456001032 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1089456001033 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 1089456001034 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1089456001035 catalytic residues [active] 1089456001036 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 1089456001037 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1089456001038 substrate binding site [chemical binding]; other site 1089456001039 glutamase interaction surface [polypeptide binding]; other site 1089456001040 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 1089456001041 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456001042 substrate binding pocket [chemical binding]; other site 1089456001043 membrane-bound complex binding site; other site 1089456001044 hinge residues; other site 1089456001045 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 1089456001046 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456001047 substrate binding pocket [chemical binding]; other site 1089456001048 membrane-bound complex binding site; other site 1089456001049 hinge residues; other site 1089456001050 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1089456001051 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 1089456001052 substrate binding pocket [chemical binding]; other site 1089456001053 membrane-bound complex binding site; other site 1089456001054 hinge residues; other site 1089456001055 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1089456001056 NodB motif; other site 1089456001057 putative active site [active] 1089456001058 putative catalytic site [active] 1089456001059 Zn binding site [ion binding]; other site 1089456001060 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1089456001061 C-terminal peptidase (prc); Region: prc; TIGR00225 1089456001062 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 1089456001063 protein binding site [polypeptide binding]; other site 1089456001064 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1089456001065 Catalytic dyad [active] 1089456001066 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1089456001067 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456001068 CAAX protease self-immunity; Region: Abi; pfam02517 1089456001069 phosphoglyceromutase; Provisional; Region: PRK05434 1089456001070 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1089456001071 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 1089456001072 active site residue [active] 1089456001073 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 1089456001074 GSH binding site [chemical binding]; other site 1089456001075 catalytic residues [active] 1089456001076 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 1089456001077 SecA binding site; other site 1089456001078 Preprotein binding site; other site 1089456001079 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1089456001080 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1089456001081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456001082 active site 1089456001083 phosphorylation site [posttranslational modification] 1089456001084 intermolecular recognition site; other site 1089456001085 dimerization interface [polypeptide binding]; other site 1089456001086 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 1089456001087 Walker A motif; other site 1089456001088 ATP binding site [chemical binding]; other site 1089456001089 Walker B motif; other site 1089456001090 arginine finger; other site 1089456001091 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456001092 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1089456001093 PAS domain; Region: PAS; smart00091 1089456001094 putative active site [active] 1089456001095 heme pocket [chemical binding]; other site 1089456001096 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 1089456001097 dimer interface [polypeptide binding]; other site 1089456001098 phosphorylation site [posttranslational modification] 1089456001099 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456001100 ATP binding site [chemical binding]; other site 1089456001101 Mg2+ binding site [ion binding]; other site 1089456001102 G-X-G motif; other site 1089456001103 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1089456001104 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1089456001105 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1089456001106 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456001107 glutamine synthetase; Provisional; Region: glnA; PRK09469 1089456001108 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1089456001109 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456001110 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1089456001111 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1089456001112 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 1089456001113 Ligand Binding Site [chemical binding]; other site 1089456001114 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 1089456001115 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1089456001116 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1089456001117 G1 box; other site 1089456001118 putative GEF interaction site [polypeptide binding]; other site 1089456001119 GTP/Mg2+ binding site [chemical binding]; other site 1089456001120 Switch I region; other site 1089456001121 G2 box; other site 1089456001122 G3 box; other site 1089456001123 Switch II region; other site 1089456001124 G4 box; other site 1089456001125 G5 box; other site 1089456001126 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 1089456001127 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 1089456001128 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1089456001129 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1089456001130 DNA binding residues [nucleotide binding] 1089456001131 putative dimer interface [polypeptide binding]; other site 1089456001132 putative metal binding residues [ion binding]; other site 1089456001133 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 1089456001134 S-adenosylmethionine binding site [chemical binding]; other site 1089456001135 Predicted membrane protein [Function unknown]; Region: COG5373 1089456001136 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1089456001137 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1089456001138 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1089456001139 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 1089456001140 active site 1089456001141 catalytic triad [active] 1089456001142 oxyanion hole [active] 1089456001143 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1089456001144 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1089456001145 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456001146 dimer interface [polypeptide binding]; other site 1089456001147 active site 1089456001148 metal binding site [ion binding]; metal-binding site 1089456001149 glutathione binding site [chemical binding]; other site 1089456001150 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1089456001151 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 1089456001152 AMP binding site [chemical binding]; other site 1089456001153 metal binding site [ion binding]; metal-binding site 1089456001154 active site 1089456001155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1089456001156 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1089456001157 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1089456001158 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1089456001159 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1089456001160 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 1089456001161 active site 1089456001162 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1089456001163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456001164 DNA-binding site [nucleotide binding]; DNA binding site 1089456001165 UTRA domain; Region: UTRA; pfam07702 1089456001166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1089456001167 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1089456001168 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1089456001169 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1089456001170 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1089456001171 putative di-iron ligands [ion binding]; other site 1089456001172 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1089456001173 urocanate hydratase; Provisional; Region: PRK05414 1089456001174 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1089456001175 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1089456001176 Na binding site [ion binding]; other site 1089456001177 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1089456001178 active sites [active] 1089456001179 tetramer interface [polypeptide binding]; other site 1089456001180 putative proline-specific permease; Provisional; Region: proY; PRK10580 1089456001181 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1089456001182 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1089456001183 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456001184 dimer interface [polypeptide binding]; other site 1089456001185 conserved gate region; other site 1089456001186 putative PBP binding loops; other site 1089456001187 ABC-ATPase subunit interface; other site 1089456001188 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1089456001189 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1089456001190 Walker A/P-loop; other site 1089456001191 ATP binding site [chemical binding]; other site 1089456001192 Q-loop/lid; other site 1089456001193 ABC transporter signature motif; other site 1089456001194 Walker B; other site 1089456001195 D-loop; other site 1089456001196 H-loop/switch region; other site 1089456001197 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1089456001198 active sites [active] 1089456001199 tetramer interface [polypeptide binding]; other site 1089456001200 imidazolonepropionase; Validated; Region: PRK09356 1089456001201 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 1089456001202 active site 1089456001203 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1089456001204 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1089456001205 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456001206 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456001207 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1089456001208 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456001209 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1089456001210 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456001211 putative active site [active] 1089456001212 catalytic site [active] 1089456001213 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456001214 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456001215 putative active site [active] 1089456001216 catalytic site [active] 1089456001217 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1089456001218 Sel1-like repeats; Region: SEL1; smart00671 1089456001219 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1089456001220 Sel1-like repeats; Region: SEL1; smart00671 1089456001221 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1089456001222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456001223 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 1089456001224 dimerization interface [polypeptide binding]; other site 1089456001225 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1089456001226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456001227 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 1089456001228 homotrimer interaction site [polypeptide binding]; other site 1089456001229 putative active site [active] 1089456001230 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456001231 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 1089456001232 substrate binding pocket [chemical binding]; other site 1089456001233 membrane-bound complex binding site; other site 1089456001234 hinge residues; other site 1089456001235 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 1089456001236 nudix motif; other site 1089456001237 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1089456001238 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1089456001239 TAP-like protein; Region: Abhydrolase_4; pfam08386 1089456001240 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 1089456001241 putative active site [active] 1089456001242 dimerization interface [polypeptide binding]; other site 1089456001243 putative tRNAtyr binding site [nucleotide binding]; other site 1089456001244 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1089456001245 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 1089456001246 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1089456001247 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1089456001248 Ligand binding site; other site 1089456001249 DXD motif; other site 1089456001250 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456001251 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 1089456001252 substrate binding pocket [chemical binding]; other site 1089456001253 membrane-bound complex binding site; other site 1089456001254 hinge residues; other site 1089456001255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456001256 dimer interface [polypeptide binding]; other site 1089456001257 conserved gate region; other site 1089456001258 putative PBP binding loops; other site 1089456001259 ABC-ATPase subunit interface; other site 1089456001260 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1089456001261 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1089456001262 Walker A/P-loop; other site 1089456001263 ATP binding site [chemical binding]; other site 1089456001264 Q-loop/lid; other site 1089456001265 ABC transporter signature motif; other site 1089456001266 Walker B; other site 1089456001267 D-loop; other site 1089456001268 H-loop/switch region; other site 1089456001269 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 1089456001270 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1089456001271 HAMP domain; Region: HAMP; pfam00672 1089456001272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456001273 dimer interface [polypeptide binding]; other site 1089456001274 putative CheW interface [polypeptide binding]; other site 1089456001275 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1089456001276 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1089456001277 sec-independent translocase; Provisional; Region: tatB; PRK00404 1089456001278 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1089456001279 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 1089456001280 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1089456001281 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 1089456001282 metal binding site [ion binding]; metal-binding site 1089456001283 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1089456001284 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1089456001285 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1089456001286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1089456001287 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1089456001288 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1089456001289 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 1089456001290 S-adenosylmethionine binding site [chemical binding]; other site 1089456001291 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 1089456001292 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1089456001293 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1089456001294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456001295 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456001296 Bacterial transcriptional repressor; Region: TetR; pfam13972 1089456001297 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1089456001298 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1089456001299 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1089456001300 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1089456001301 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1089456001302 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1089456001303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1089456001304 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1089456001305 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 1089456001306 Walker A motif; other site 1089456001307 ATP binding site [chemical binding]; other site 1089456001308 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1089456001309 Walker B motif; other site 1089456001310 arginine finger; other site 1089456001311 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1089456001312 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 1089456001313 active site 1089456001314 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1089456001315 Sporulation related domain; Region: SPOR; pfam05036 1089456001316 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1089456001317 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1089456001318 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1089456001319 active site 1089456001320 HIGH motif; other site 1089456001321 KMSK motif region; other site 1089456001322 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1089456001323 tRNA binding surface [nucleotide binding]; other site 1089456001324 anticodon binding site; other site 1089456001325 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 1089456001326 primosomal protein N' Region: priA; TIGR00595 1089456001327 ATP binding site [chemical binding]; other site 1089456001328 putative Mg++ binding site [ion binding]; other site 1089456001329 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1089456001330 nucleotide binding region [chemical binding]; other site 1089456001331 ATP-binding site [chemical binding]; other site 1089456001332 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1089456001333 Staphylococcal nuclease homologues; Region: SNc; smart00318 1089456001334 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1089456001335 Catalytic site; other site 1089456001336 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1089456001337 Peptidase family M48; Region: Peptidase_M48; pfam01435 1089456001338 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1089456001339 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1089456001340 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1089456001341 putative NAD(P) binding site [chemical binding]; other site 1089456001342 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1089456001343 Transglycosylase; Region: Transgly; pfam00912 1089456001344 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1089456001345 Competence protein A; Region: Competence_A; pfam11104 1089456001346 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1089456001347 nucleotide binding site [chemical binding]; other site 1089456001348 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1089456001349 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1089456001350 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 1089456001351 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1089456001352 Pilus assembly protein, PilP; Region: PilP; pfam04351 1089456001353 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 1089456001354 AMIN domain; Region: AMIN; pfam11741 1089456001355 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456001356 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456001357 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1089456001358 shikimate kinase; Reviewed; Region: aroK; PRK00131 1089456001359 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 1089456001360 ADP binding site [chemical binding]; other site 1089456001361 magnesium binding site [ion binding]; other site 1089456001362 putative shikimate binding site; other site 1089456001363 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1089456001364 active site 1089456001365 dimer interface [polypeptide binding]; other site 1089456001366 metal binding site [ion binding]; metal-binding site 1089456001367 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1089456001368 AAA ATPase domain; Region: AAA_16; pfam13191 1089456001369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 1089456001370 Sporulation related domain; Region: SPOR; pfam05036 1089456001371 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1089456001372 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 1089456001373 active site 1089456001374 dimer interface [polypeptide binding]; other site 1089456001375 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1089456001376 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 1089456001377 active site 1089456001378 FMN binding site [chemical binding]; other site 1089456001379 substrate binding site [chemical binding]; other site 1089456001380 3Fe-4S cluster binding site [ion binding]; other site 1089456001381 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 1089456001382 domain interface; other site 1089456001383 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1089456001384 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456001385 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456001386 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1089456001387 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 1089456001388 substrate binding site [chemical binding]; other site 1089456001389 active site 1089456001390 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456001391 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456001392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456001393 short chain dehydrogenase; Provisional; Region: PRK06197 1089456001394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456001395 NAD(P) binding site [chemical binding]; other site 1089456001396 active site 1089456001397 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456001398 putative substrate translocation pore; other site 1089456001399 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1089456001400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456001401 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 1089456001402 dimerization interface [polypeptide binding]; other site 1089456001403 substrate binding pocket [chemical binding]; other site 1089456001404 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1089456001405 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 1089456001406 P-loop; other site 1089456001407 Magnesium ion binding site [ion binding]; other site 1089456001408 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 1089456001409 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 1089456001410 Ligand Binding Site [chemical binding]; other site 1089456001411 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 1089456001412 Ligand Binding Site [chemical binding]; other site 1089456001413 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 1089456001414 CoenzymeA binding site [chemical binding]; other site 1089456001415 subunit interaction site [polypeptide binding]; other site 1089456001416 PHB binding site; other site 1089456001417 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1089456001418 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 1089456001419 homodimer interface [polypeptide binding]; other site 1089456001420 substrate-cofactor binding pocket; other site 1089456001421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456001422 catalytic residue [active] 1089456001423 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1089456001424 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1089456001425 hypothetical protein; Validated; Region: PRK00029 1089456001426 hypothetical protein; Provisional; Region: PRK11281 1089456001427 Vegetative insecticide protein 3A N terminal; Region: Vip3A_N; pfam12495 1089456001428 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1089456001429 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456001430 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 1089456001431 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1089456001432 TrkA-C domain; Region: TrkA_C; pfam02080 1089456001433 Transporter associated domain; Region: CorC_HlyC; smart01091 1089456001434 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1089456001435 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1089456001436 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456001437 active site 1089456001438 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1089456001439 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1089456001440 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1089456001441 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1089456001442 GAF domain; Region: GAF; pfam01590 1089456001443 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 1089456001444 PAS domain; Region: PAS_9; pfam13426 1089456001445 putative active site [active] 1089456001446 heme pocket [chemical binding]; other site 1089456001447 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456001448 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456001449 metal binding site [ion binding]; metal-binding site 1089456001450 active site 1089456001451 I-site; other site 1089456001452 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 1089456001453 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_long; TIGR01348 1089456001454 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 1089456001455 E3 interaction surface; other site 1089456001456 lipoyl attachment site [posttranslational modification]; other site 1089456001457 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 1089456001458 E3 interaction surface; other site 1089456001459 lipoyl attachment site [posttranslational modification]; other site 1089456001460 e3 binding domain; Region: E3_binding; pfam02817 1089456001461 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1089456001462 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1089456001463 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 1089456001464 dimer interface [polypeptide binding]; other site 1089456001465 TPP-binding site [chemical binding]; other site 1089456001466 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1089456001467 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1089456001468 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1089456001469 metal binding triad; other site 1089456001470 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1089456001471 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1089456001472 metal binding triad; other site 1089456001473 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1089456001474 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1089456001475 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 1089456001476 homodimer interface [polypeptide binding]; other site 1089456001477 substrate-cofactor binding pocket; other site 1089456001478 catalytic residue [active] 1089456001479 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 1089456001480 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1089456001481 putative active site [active] 1089456001482 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1089456001483 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 1089456001484 putative active site [active] 1089456001485 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456001486 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 1089456001487 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1089456001488 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1089456001489 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1089456001490 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 1089456001491 active site 1089456001492 ATP binding site [chemical binding]; other site 1089456001493 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1089456001494 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1089456001495 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1089456001496 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 1089456001497 putative ADP-binding pocket [chemical binding]; other site 1089456001498 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456001499 Mig-14; Region: Mig-14; pfam07395 1089456001500 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1089456001501 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1089456001502 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456001503 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1089456001504 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1089456001505 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 1089456001506 active site 1089456001507 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1089456001508 O-Antigen ligase; Region: Wzy_C; pfam04932 1089456001509 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 1089456001510 active site 1089456001511 substrate binding site [chemical binding]; other site 1089456001512 ATP binding site [chemical binding]; other site 1089456001513 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1089456001514 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1089456001515 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1089456001516 Walker A/P-loop; other site 1089456001517 ATP binding site [chemical binding]; other site 1089456001518 Q-loop/lid; other site 1089456001519 ABC transporter signature motif; other site 1089456001520 Walker B; other site 1089456001521 D-loop; other site 1089456001522 H-loop/switch region; other site 1089456001523 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1089456001524 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 1089456001525 putative ribose interaction site [chemical binding]; other site 1089456001526 putative ADP binding site [chemical binding]; other site 1089456001527 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1089456001528 active site 1089456001529 nucleotide binding site [chemical binding]; other site 1089456001530 HIGH motif; other site 1089456001531 KMSKS motif; other site 1089456001532 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456001533 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456001534 active site 1089456001535 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456001536 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456001537 active site 1089456001538 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 1089456001539 active site 1089456001540 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456001541 catalytic tetrad [active] 1089456001542 FAD dependent oxidoreductase; Region: DAO; pfam01266 1089456001543 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456001544 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1089456001545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456001546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456001547 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 1089456001548 dimerization interface [polypeptide binding]; other site 1089456001549 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1089456001550 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1089456001551 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 1089456001552 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1089456001553 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 1089456001554 non-specific DNA binding site [nucleotide binding]; other site 1089456001555 salt bridge; other site 1089456001556 sequence-specific DNA binding site [nucleotide binding]; other site 1089456001557 Cupin domain; Region: Cupin_2; pfam07883 1089456001558 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1089456001559 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 1089456001560 putative active site [active] 1089456001561 putative FMN binding site [chemical binding]; other site 1089456001562 putative substrate binding site [chemical binding]; other site 1089456001563 putative catalytic residue [active] 1089456001564 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1089456001565 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456001566 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1089456001567 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456001568 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1089456001569 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 1089456001570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456001571 active site 1089456001572 phosphorylation site [posttranslational modification] 1089456001573 intermolecular recognition site; other site 1089456001574 dimerization interface [polypeptide binding]; other site 1089456001575 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 1089456001576 DNA binding site [nucleotide binding] 1089456001577 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456001578 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 1089456001579 substrate binding pocket [chemical binding]; other site 1089456001580 membrane-bound complex binding site; other site 1089456001581 hinge residues; other site 1089456001582 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456001583 HAMP domain; Region: HAMP; pfam00672 1089456001584 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 1089456001585 dimer interface [polypeptide binding]; other site 1089456001586 phosphorylation site [posttranslational modification] 1089456001587 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456001588 ATP binding site [chemical binding]; other site 1089456001589 Mg2+ binding site [ion binding]; other site 1089456001590 G-X-G motif; other site 1089456001591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456001592 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456001593 active site 1089456001594 phosphorylation site [posttranslational modification] 1089456001595 intermolecular recognition site; other site 1089456001596 dimerization interface [polypeptide binding]; other site 1089456001597 S-methylmethionine transporter; Provisional; Region: PRK11387 1089456001598 enoyl-CoA hydratase; Provisional; Region: PRK06688 1089456001599 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 1089456001600 substrate binding site [chemical binding]; other site 1089456001601 oxyanion hole (OAH) forming residues; other site 1089456001602 trimer interface [polypeptide binding]; other site 1089456001603 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1089456001604 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456001605 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456001606 active site 1089456001607 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1089456001608 CoA binding domain; Region: CoA_binding_2; pfam13380 1089456001609 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1089456001610 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1089456001611 hypothetical protein; Provisional; Region: PRK07524 1089456001612 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1089456001613 PYR/PP interface [polypeptide binding]; other site 1089456001614 dimer interface [polypeptide binding]; other site 1089456001615 TPP binding site [chemical binding]; other site 1089456001616 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456001617 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 1089456001618 TPP-binding site [chemical binding]; other site 1089456001619 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1089456001620 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 1089456001621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456001622 homodimer interface [polypeptide binding]; other site 1089456001623 catalytic residue [active] 1089456001624 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1089456001625 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456001626 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1089456001627 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1089456001628 ThiC-associated domain; Region: ThiC-associated; pfam13667 1089456001629 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1089456001630 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1089456001631 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1089456001632 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 1089456001633 dimer interface [polypeptide binding]; other site 1089456001634 ADP-ribose binding site [chemical binding]; other site 1089456001635 active site 1089456001636 nudix motif; other site 1089456001637 metal binding site [ion binding]; metal-binding site 1089456001638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3151 1089456001639 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1089456001640 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1089456001641 active site 1089456001642 metal binding site [ion binding]; metal-binding site 1089456001643 hexamer interface [polypeptide binding]; other site 1089456001644 Predicted esterase [General function prediction only]; Region: COG3150 1089456001645 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456001646 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1089456001647 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456001648 ATP binding site [chemical binding]; other site 1089456001649 Mg2+ binding site [ion binding]; other site 1089456001650 G-X-G motif; other site 1089456001651 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 1089456001652 anchoring element; other site 1089456001653 dimer interface [polypeptide binding]; other site 1089456001654 ATP binding site [chemical binding]; other site 1089456001655 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 1089456001656 active site 1089456001657 metal binding site [ion binding]; metal-binding site 1089456001658 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1089456001659 SdiA-regulated; Region: SdiA-regulated; cd09971 1089456001660 putative active site [active] 1089456001661 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1089456001662 catalytic motif [active] 1089456001663 Catalytic residue [active] 1089456001664 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1089456001665 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 1089456001666 CAP-like domain; other site 1089456001667 active site 1089456001668 primary dimer interface [polypeptide binding]; other site 1089456001669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1089456001670 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1089456001671 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 1089456001672 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1089456001673 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1089456001674 metal binding site [ion binding]; metal-binding site 1089456001675 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1089456001676 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1089456001677 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1089456001678 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 1089456001679 motif II; other site 1089456001680 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456001681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1089456001682 active site 1089456001683 phosphorylation site [posttranslational modification] 1089456001684 dimerization interface [polypeptide binding]; other site 1089456001685 PAS fold; Region: PAS; pfam00989 1089456001686 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 1089456001687 putative active site [active] 1089456001688 heme pocket [chemical binding]; other site 1089456001689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456001690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456001691 metal binding site [ion binding]; metal-binding site 1089456001692 active site 1089456001693 I-site; other site 1089456001694 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 1089456001695 Src homology 2 (SH2) domain; Region: SH2; cl15255 1089456001696 phosphotyrosine binding pocket [polypeptide binding]; other site 1089456001697 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1089456001698 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1089456001699 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 1089456001700 active site residue [active] 1089456001701 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 1089456001702 active site residue [active] 1089456001703 HDOD domain; Region: HDOD; pfam08668 1089456001704 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1089456001705 flagellar motor protein MotA; Validated; Region: PRK09110 1089456001706 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1089456001707 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1089456001708 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456001709 ligand binding site [chemical binding]; other site 1089456001710 GTPase RsgA; Reviewed; Region: PRK12288 1089456001711 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 1089456001712 RNA binding site [nucleotide binding]; other site 1089456001713 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1089456001714 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1089456001715 GTP/Mg2+ binding site [chemical binding]; other site 1089456001716 G4 box; other site 1089456001717 G5 box; other site 1089456001718 G1 box; other site 1089456001719 Switch I region; other site 1089456001720 G2 box; other site 1089456001721 G3 box; other site 1089456001722 Switch II region; other site 1089456001723 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1089456001724 catalytic site [active] 1089456001725 putative active site [active] 1089456001726 putative substrate binding site [chemical binding]; other site 1089456001727 dimer interface [polypeptide binding]; other site 1089456001728 epoxyqueuosine reductase; Region: TIGR00276 1089456001729 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1089456001730 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1089456001731 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 1089456001732 putative substrate binding site [chemical binding]; other site 1089456001733 putative ATP binding site [chemical binding]; other site 1089456001734 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1089456001735 AMIN domain; Region: AMIN; pfam11741 1089456001736 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1089456001737 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 1089456001738 active site 1089456001739 metal binding site [ion binding]; metal-binding site 1089456001740 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1089456001741 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456001742 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1089456001743 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456001744 ATP binding site [chemical binding]; other site 1089456001745 Mg2+ binding site [ion binding]; other site 1089456001746 G-X-G motif; other site 1089456001747 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 1089456001748 ATP binding site [chemical binding]; other site 1089456001749 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1089456001750 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1089456001751 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1089456001752 bacterial Hfq-like; Region: Hfq; cd01716 1089456001753 hexamer interface [polypeptide binding]; other site 1089456001754 Sm1 motif; other site 1089456001755 RNA binding site [nucleotide binding]; other site 1089456001756 Sm2 motif; other site 1089456001757 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1089456001758 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1089456001759 HflX GTPase family; Region: HflX; cd01878 1089456001760 G1 box; other site 1089456001761 GTP/Mg2+ binding site [chemical binding]; other site 1089456001762 Switch I region; other site 1089456001763 G2 box; other site 1089456001764 G3 box; other site 1089456001765 Switch II region; other site 1089456001766 G4 box; other site 1089456001767 G5 box; other site 1089456001768 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1089456001769 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 1089456001770 HflK protein; Region: hflK; TIGR01933 1089456001771 FtsH protease regulator HflC; Provisional; Region: PRK11029 1089456001772 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 1089456001773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1089456001774 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1089456001775 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 1089456001776 dimer interface [polypeptide binding]; other site 1089456001777 motif 1; other site 1089456001778 active site 1089456001779 motif 2; other site 1089456001780 motif 3; other site 1089456001781 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1089456001782 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 1089456001783 GDP-binding site [chemical binding]; other site 1089456001784 ACT binding site; other site 1089456001785 IMP binding site; other site 1089456001786 exoribonuclease R; Provisional; Region: PRK11642 1089456001787 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1089456001788 RNB domain; Region: RNB; pfam00773 1089456001789 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 1089456001790 RNA binding site [nucleotide binding]; other site 1089456001791 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1089456001792 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1089456001793 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1089456001794 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1089456001795 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1089456001796 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1089456001797 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1089456001798 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1089456001799 replicative DNA helicase; Provisional; Region: PRK05748 1089456001800 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1089456001801 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 1089456001802 Walker A motif; other site 1089456001803 ATP binding site [chemical binding]; other site 1089456001804 Walker B motif; other site 1089456001805 DNA binding loops [nucleotide binding] 1089456001806 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1089456001807 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1089456001808 active site 1089456001809 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1089456001810 substrate binding site [chemical binding]; other site 1089456001811 catalytic residues [active] 1089456001812 dimer interface [polypeptide binding]; other site 1089456001813 beta-galactosidase; Region: BGL; TIGR03356 1089456001814 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1089456001815 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1089456001816 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1089456001817 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456001818 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456001819 metal binding site [ion binding]; metal-binding site 1089456001820 active site 1089456001821 I-site; other site 1089456001822 hypothetical protein; Provisional; Region: PRK01254 1089456001823 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1089456001824 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1089456001825 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1089456001826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1089456001827 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1089456001828 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1089456001829 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1089456001830 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1089456001831 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1089456001832 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456001833 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456001834 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456001835 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1089456001836 Azurin [Energy production and conversion]; Region: COG3241 1089456001837 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1089456001838 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 1089456001839 active site 1089456001840 catalytic triad [active] 1089456001841 oxyanion hole [active] 1089456001842 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1089456001843 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 1089456001844 homodimer interface [polypeptide binding]; other site 1089456001845 NAD binding pocket [chemical binding]; other site 1089456001846 ATP binding pocket [chemical binding]; other site 1089456001847 Mg binding site [ion binding]; other site 1089456001848 active-site loop [active] 1089456001849 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1089456001850 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 1089456001851 active site 1089456001852 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 1089456001853 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456001854 catalytic triad [active] 1089456001855 metal binding site [ion binding]; metal-binding site 1089456001856 conserved cis-peptide bond; other site 1089456001857 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1089456001858 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1089456001859 active site 1089456001860 nucleotide binding site [chemical binding]; other site 1089456001861 HIGH motif; other site 1089456001862 KMSKS motif; other site 1089456001863 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1089456001864 nudix motif; other site 1089456001865 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1089456001866 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 1089456001867 dimerization interface [polypeptide binding]; other site 1089456001868 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456001869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456001870 dimer interface [polypeptide binding]; other site 1089456001871 putative CheW interface [polypeptide binding]; other site 1089456001872 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456001873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456001874 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 1089456001875 dimerization interface [polypeptide binding]; other site 1089456001876 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1089456001877 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 1089456001878 dimerization interface [polypeptide binding]; other site 1089456001879 ligand binding site [chemical binding]; other site 1089456001880 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1089456001881 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 1089456001882 TM-ABC transporter signature motif; other site 1089456001883 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1089456001884 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1089456001885 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 1089456001886 TM-ABC transporter signature motif; other site 1089456001887 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1089456001888 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1089456001889 Walker A/P-loop; other site 1089456001890 ATP binding site [chemical binding]; other site 1089456001891 Q-loop/lid; other site 1089456001892 ABC transporter signature motif; other site 1089456001893 Walker B; other site 1089456001894 D-loop; other site 1089456001895 H-loop/switch region; other site 1089456001896 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1089456001897 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1089456001898 Walker A/P-loop; other site 1089456001899 ATP binding site [chemical binding]; other site 1089456001900 Q-loop/lid; other site 1089456001901 ABC transporter signature motif; other site 1089456001902 Walker B; other site 1089456001903 D-loop; other site 1089456001904 H-loop/switch region; other site 1089456001905 ornithine cyclodeaminase; Validated; Region: PRK06141 1089456001906 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1089456001907 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1089456001908 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1089456001909 putative NAD(P) binding site [chemical binding]; other site 1089456001910 homodimer interface [polypeptide binding]; other site 1089456001911 homotetramer interface [polypeptide binding]; other site 1089456001912 active site 1089456001913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456001914 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1089456001915 DNA-binding site [nucleotide binding]; DNA binding site 1089456001916 FCD domain; Region: FCD; pfam07729 1089456001917 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1089456001918 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 1089456001919 FMN-binding pocket [chemical binding]; other site 1089456001920 flavin binding motif; other site 1089456001921 phosphate binding motif [ion binding]; other site 1089456001922 beta-alpha-beta structure motif; other site 1089456001923 NAD binding pocket [chemical binding]; other site 1089456001924 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 1089456001925 catalytic loop [active] 1089456001926 iron binding site [ion binding]; other site 1089456001927 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1089456001928 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 1089456001929 iron-sulfur cluster [ion binding]; other site 1089456001930 [2Fe-2S] cluster binding site [ion binding]; other site 1089456001931 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 1089456001932 alpha subunit interface [polypeptide binding]; other site 1089456001933 active site 1089456001934 substrate binding site [chemical binding]; other site 1089456001935 Fe binding site [ion binding]; other site 1089456001936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456001937 putative substrate translocation pore; other site 1089456001938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456001939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456001940 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 1089456001941 substrate binding pocket [chemical binding]; other site 1089456001942 dimerization interface [polypeptide binding]; other site 1089456001943 benzoylformate decarboxylase; Reviewed; Region: PRK07092 1089456001944 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1089456001945 PYR/PP interface [polypeptide binding]; other site 1089456001946 dimer interface [polypeptide binding]; other site 1089456001947 TPP binding site [chemical binding]; other site 1089456001948 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456001949 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 1089456001950 TPP-binding site [chemical binding]; other site 1089456001951 dimer interface [polypeptide binding]; other site 1089456001952 benzoate transport; Region: 2A0115; TIGR00895 1089456001953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456001954 putative substrate translocation pore; other site 1089456001955 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 1089456001956 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1089456001957 NAD(P) binding site [chemical binding]; other site 1089456001958 catalytic residues [active] 1089456001959 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456001960 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456001961 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1089456001962 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 1089456001963 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 1089456001964 RNA polymerase sigma factor; Provisional; Region: PRK12529 1089456001965 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456001966 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 1089456001967 DNA binding residues [nucleotide binding] 1089456001968 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456001969 FecR protein; Region: FecR; pfam04773 1089456001970 HupE / UreJ protein; Region: HupE_UreJ; cl01011 1089456001971 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1089456001972 G1 box; other site 1089456001973 GTP/Mg2+ binding site [chemical binding]; other site 1089456001974 G2 box; other site 1089456001975 Switch I region; other site 1089456001976 G3 box; other site 1089456001977 Switch II region; other site 1089456001978 G4 box; other site 1089456001979 G5 box; other site 1089456001980 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1089456001981 UreF; Region: UreF; pfam01730 1089456001982 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1089456001983 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 1089456001984 dimer interface [polypeptide binding]; other site 1089456001985 catalytic residues [active] 1089456001986 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1089456001987 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456001988 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 1089456001989 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1089456001990 FAD binding pocket [chemical binding]; other site 1089456001991 FAD binding motif [chemical binding]; other site 1089456001992 phosphate binding motif [ion binding]; other site 1089456001993 beta-alpha-beta structure motif; other site 1089456001994 NAD binding pocket [chemical binding]; other site 1089456001995 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 1089456001996 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1089456001997 catalytic loop [active] 1089456001998 iron binding site [ion binding]; other site 1089456001999 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1089456002000 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 1089456002001 putative di-iron ligands [ion binding]; other site 1089456002002 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456002003 putative MFS family transporter protein; Provisional; Region: PRK03633 1089456002004 putative substrate translocation pore; other site 1089456002005 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1089456002006 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 1089456002007 dimerization interface [polypeptide binding]; other site 1089456002008 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 1089456002009 dimer interface [polypeptide binding]; other site 1089456002010 phosphorylation site [posttranslational modification] 1089456002011 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456002012 ATP binding site [chemical binding]; other site 1089456002013 Mg2+ binding site [ion binding]; other site 1089456002014 G-X-G motif; other site 1089456002015 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1089456002016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456002017 active site 1089456002018 phosphorylation site [posttranslational modification] 1089456002019 intermolecular recognition site; other site 1089456002020 dimerization interface [polypeptide binding]; other site 1089456002021 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 1089456002022 DNA binding site [nucleotide binding] 1089456002023 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1089456002024 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 1089456002025 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1089456002026 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 1089456002027 Moco binding site; other site 1089456002028 metal coordination site [ion binding]; other site 1089456002029 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1089456002030 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1089456002031 dinuclear metal binding motif [ion binding]; other site 1089456002032 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1089456002033 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1089456002034 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1089456002035 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1089456002036 DNA binding residues [nucleotide binding] 1089456002037 drug binding residues [chemical binding]; other site 1089456002038 dimer interface [polypeptide binding]; other site 1089456002039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1089456002040 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1089456002041 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1089456002042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1089456002043 MOSC domain; Region: MOSC; pfam03473 1089456002044 psiF repeat; Region: PsiF_repeat; pfam07769 1089456002045 psiF repeat; Region: PsiF_repeat; pfam07769 1089456002046 psiF repeat; Region: PsiF_repeat; pfam07769 1089456002047 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1089456002048 putative chaperone; Provisional; Region: PRK11678 1089456002049 nucleotide binding site [chemical binding]; other site 1089456002050 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1089456002051 SBD interface [polypeptide binding]; other site 1089456002052 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 1089456002053 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1089456002054 tetramer interface [polypeptide binding]; other site 1089456002055 active site 1089456002056 Mg2+/Mn2+ binding site [ion binding]; other site 1089456002057 hypothetical protein; Provisional; Region: PRK11019 1089456002058 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1089456002059 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 1089456002060 subunit interactions [polypeptide binding]; other site 1089456002061 active site 1089456002062 flap region; other site 1089456002063 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 1089456002064 gamma-beta subunit interface [polypeptide binding]; other site 1089456002065 alpha-beta subunit interface [polypeptide binding]; other site 1089456002066 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1089456002067 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456002068 Coenzyme A binding pocket [chemical binding]; other site 1089456002069 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 1089456002070 alpha-gamma subunit interface [polypeptide binding]; other site 1089456002071 beta-gamma subunit interface [polypeptide binding]; other site 1089456002072 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1089456002073 putative acetyltransferase; Provisional; Region: PRK03624 1089456002074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456002075 Coenzyme A binding pocket [chemical binding]; other site 1089456002076 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1089456002077 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1089456002078 Walker A/P-loop; other site 1089456002079 ATP binding site [chemical binding]; other site 1089456002080 Q-loop/lid; other site 1089456002081 ABC transporter signature motif; other site 1089456002082 Walker B; other site 1089456002083 D-loop; other site 1089456002084 H-loop/switch region; other site 1089456002085 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1089456002086 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1089456002087 Walker A/P-loop; other site 1089456002088 ATP binding site [chemical binding]; other site 1089456002089 Q-loop/lid; other site 1089456002090 ABC transporter signature motif; other site 1089456002091 Walker B; other site 1089456002092 D-loop; other site 1089456002093 H-loop/switch region; other site 1089456002094 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 1089456002095 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1089456002096 TM-ABC transporter signature motif; other site 1089456002097 HEAT repeats; Region: HEAT_2; pfam13646 1089456002098 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 1089456002099 TM-ABC transporter signature motif; other site 1089456002100 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1089456002101 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1089456002102 putative ligand binding site [chemical binding]; other site 1089456002103 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1089456002104 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1089456002105 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1089456002106 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 1089456002107 dimer interface [polypeptide binding]; other site 1089456002108 phosphorylation site [posttranslational modification] 1089456002109 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456002110 ATP binding site [chemical binding]; other site 1089456002111 Mg2+ binding site [ion binding]; other site 1089456002112 G-X-G motif; other site 1089456002113 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456002114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456002115 active site 1089456002116 phosphorylation site [posttranslational modification] 1089456002117 intermolecular recognition site; other site 1089456002118 dimerization interface [polypeptide binding]; other site 1089456002119 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456002120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456002121 active site 1089456002122 phosphorylation site [posttranslational modification] 1089456002123 intermolecular recognition site; other site 1089456002124 dimerization interface [polypeptide binding]; other site 1089456002125 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1089456002126 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1089456002127 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1089456002128 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1089456002129 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1089456002130 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 1089456002131 purine monophosphate binding site [chemical binding]; other site 1089456002132 dimer interface [polypeptide binding]; other site 1089456002133 putative catalytic residues [active] 1089456002134 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1089456002135 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1089456002136 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1089456002137 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1089456002138 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1089456002139 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 1089456002140 FMN binding site [chemical binding]; other site 1089456002141 active site 1089456002142 catalytic residues [active] 1089456002143 substrate binding site [chemical binding]; other site 1089456002144 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1089456002145 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1089456002146 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1089456002147 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 1089456002148 S-adenosylmethionine binding site [chemical binding]; other site 1089456002149 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1089456002150 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456002151 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1089456002152 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1089456002153 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1089456002154 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 1089456002155 carboxyltransferase (CT) interaction site; other site 1089456002156 biotinylation site [posttranslational modification]; other site 1089456002157 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 1089456002158 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1089456002159 active site 1089456002160 trimer interface [polypeptide binding]; other site 1089456002161 dimer interface [polypeptide binding]; other site 1089456002162 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1089456002163 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1089456002164 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 1089456002165 DsbD alpha interface [polypeptide binding]; other site 1089456002166 catalytic residues [active] 1089456002167 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456002168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456002169 dimer interface [polypeptide binding]; other site 1089456002170 putative CheW interface [polypeptide binding]; other site 1089456002171 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1089456002172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456002173 active site 1089456002174 phosphorylation site [posttranslational modification] 1089456002175 intermolecular recognition site; other site 1089456002176 dimerization interface [polypeptide binding]; other site 1089456002177 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456002178 metal binding site [ion binding]; metal-binding site 1089456002179 active site 1089456002180 I-site; other site 1089456002181 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1089456002182 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 1089456002183 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 1089456002184 nudix motif; other site 1089456002185 translation initiation factor Sui1; Validated; Region: PRK06824 1089456002186 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1089456002187 putative rRNA binding site [nucleotide binding]; other site 1089456002188 arginine decarboxylase; Provisional; Region: PRK05354 1089456002189 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1089456002190 dimer interface [polypeptide binding]; other site 1089456002191 active site 1089456002192 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1089456002193 catalytic residues [active] 1089456002194 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1089456002195 Predicted membrane protein [Function unknown]; Region: COG3503 1089456002196 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1089456002197 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 1089456002198 N-terminal plug; other site 1089456002199 ligand-binding site [chemical binding]; other site 1089456002200 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456002201 Nicotianamine synthase protein; Region: NAS; cl17658 1089456002202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 1089456002203 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 1089456002204 EamA-like transporter family; Region: EamA; pfam00892 1089456002205 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1089456002206 EamA-like transporter family; Region: EamA; pfam00892 1089456002207 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1089456002208 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1089456002209 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1089456002210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456002211 NAD(P) binding site [chemical binding]; other site 1089456002212 active site 1089456002213 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456002214 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456002215 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 1089456002216 CoenzymeA binding site [chemical binding]; other site 1089456002217 subunit interaction site [polypeptide binding]; other site 1089456002218 PHB binding site; other site 1089456002219 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1089456002220 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 1089456002221 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456002222 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1089456002223 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 1089456002224 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 1089456002225 magnesium-transporting ATPase; Provisional; Region: PRK15122 1089456002226 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1089456002227 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1089456002228 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1089456002229 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1089456002230 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1089456002231 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1089456002232 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1089456002233 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1089456002234 PhoU domain; Region: PhoU; pfam01895 1089456002235 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 1089456002236 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1089456002237 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1089456002238 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1089456002239 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1089456002240 Ligand binding site; other site 1089456002241 Putative Catalytic site; other site 1089456002242 DXD motif; other site 1089456002243 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1089456002244 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1089456002245 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1089456002246 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1089456002247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1089456002248 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 1089456002249 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456002250 active site 1089456002251 FMN binding site [chemical binding]; other site 1089456002252 2,4-decadienoyl-CoA binding site; other site 1089456002253 catalytic residue [active] 1089456002254 4Fe-4S cluster binding site [ion binding]; other site 1089456002255 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1089456002256 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456002257 Lipase (class 2); Region: Lipase_2; pfam01674 1089456002258 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1089456002259 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 1089456002260 molybdopterin cofactor binding site; other site 1089456002261 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 1089456002262 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 1089456002263 molybdopterin cofactor binding site; other site 1089456002264 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1089456002265 4Fe-4S binding domain; Region: Fer4; cl02805 1089456002266 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1089456002267 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1089456002268 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1089456002269 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 1089456002270 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1089456002271 selenocysteine synthase; Provisional; Region: PRK04311 1089456002272 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1089456002273 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456002274 catalytic residue [active] 1089456002275 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1089456002276 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1089456002277 G1 box; other site 1089456002278 putative GEF interaction site [polypeptide binding]; other site 1089456002279 GTP/Mg2+ binding site [chemical binding]; other site 1089456002280 Switch I region; other site 1089456002281 G2 box; other site 1089456002282 G3 box; other site 1089456002283 Switch II region; other site 1089456002284 G4 box; other site 1089456002285 G5 box; other site 1089456002286 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 1089456002287 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 1089456002288 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1089456002289 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1089456002290 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 1089456002291 DNA binding residues [nucleotide binding] 1089456002292 dimerization interface [polypeptide binding]; other site 1089456002293 hypothetical protein; Provisional; Region: PRK07036 1089456002294 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 1089456002295 inhibitor-cofactor binding pocket; inhibition site 1089456002296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456002297 catalytic residue [active] 1089456002298 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1089456002299 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 1089456002300 S-adenosylmethionine binding site [chemical binding]; other site 1089456002301 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1089456002302 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1089456002303 active site 1089456002304 catalytic triad [active] 1089456002305 dimer interface [polypeptide binding]; other site 1089456002306 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 1089456002307 S-adenosylmethionine binding site [chemical binding]; other site 1089456002308 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1089456002309 AAA domain; Region: AAA_17; pfam13207 1089456002310 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1089456002311 glycine cleavage system protein H; Provisional; Region: PRK13380 1089456002312 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 1089456002313 lipoyl attachment site [posttranslational modification]; other site 1089456002314 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 1089456002315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456002316 Coenzyme A binding pocket [chemical binding]; other site 1089456002317 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1089456002318 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1089456002319 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 1089456002320 putative active site [active] 1089456002321 catalytic site [active] 1089456002322 putative metal binding site [ion binding]; other site 1089456002323 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1089456002324 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 1089456002325 S-adenosylmethionine binding site [chemical binding]; other site 1089456002326 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 1089456002327 homodimer interface [polypeptide binding]; other site 1089456002328 chemical substrate binding site [chemical binding]; other site 1089456002329 oligomer interface [polypeptide binding]; other site 1089456002330 metal binding site [ion binding]; metal-binding site 1089456002331 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 1089456002332 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 1089456002333 active site 2 [active] 1089456002334 active site 1 [active] 1089456002335 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456002336 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456002337 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456002338 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1089456002339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456002340 NAD(P) binding site [chemical binding]; other site 1089456002341 active site 1089456002342 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1089456002343 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 1089456002344 dimer interface [polypeptide binding]; other site 1089456002345 active site 1089456002346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456002347 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 1089456002348 putative DNA binding site [nucleotide binding]; other site 1089456002349 putative Zn2+ binding site [ion binding]; other site 1089456002350 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456002351 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1089456002352 EamA-like transporter family; Region: EamA; pfam00892 1089456002353 EamA-like transporter family; Region: EamA; pfam00892 1089456002354 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1089456002355 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456002356 active site 1089456002357 phosphorylation site [posttranslational modification] 1089456002358 intermolecular recognition site; other site 1089456002359 dimerization interface [polypeptide binding]; other site 1089456002360 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456002361 Zn2+ binding site [ion binding]; other site 1089456002362 Mg2+ binding site [ion binding]; other site 1089456002363 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1089456002364 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 1089456002365 ATP binding site [chemical binding]; other site 1089456002366 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1089456002367 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1089456002368 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1089456002369 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1089456002370 DNA binding residues [nucleotide binding] 1089456002371 dimer interface [polypeptide binding]; other site 1089456002372 copper binding site [ion binding]; other site 1089456002373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456002374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456002375 ATP binding site [chemical binding]; other site 1089456002376 Mg2+ binding site [ion binding]; other site 1089456002377 G-X-G motif; other site 1089456002378 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 1089456002379 dimer interface [polypeptide binding]; other site 1089456002380 phosphorylation site [posttranslational modification] 1089456002381 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 1089456002382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456002383 active site 1089456002384 phosphorylation site [posttranslational modification] 1089456002385 intermolecular recognition site; other site 1089456002386 dimerization interface [polypeptide binding]; other site 1089456002387 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 1089456002388 DNA binding site [nucleotide binding] 1089456002389 spermidine synthase; Provisional; Region: PRK00811 1089456002390 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 1089456002391 S-adenosylmethionine binding site [chemical binding]; other site 1089456002392 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 1089456002393 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1089456002394 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456002395 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 1089456002396 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1089456002397 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1089456002398 Cysteine-rich domain; Region: CCG; pfam02754 1089456002399 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1089456002400 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 1089456002401 phosphate binding site [ion binding]; other site 1089456002402 glycolate transporter; Provisional; Region: PRK09695 1089456002403 L-lactate permease; Region: Lactate_perm; cl00701 1089456002404 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1089456002405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456002406 DNA-binding site [nucleotide binding]; DNA binding site 1089456002407 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1089456002408 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 1089456002409 SmpB-tmRNA interface; other site 1089456002410 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1089456002411 putative coenzyme Q binding site [chemical binding]; other site 1089456002412 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 1089456002413 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1089456002414 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1089456002415 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1089456002416 metal binding site 2 [ion binding]; metal-binding site 1089456002417 putative DNA binding helix; other site 1089456002418 metal binding site 1 [ion binding]; metal-binding site 1089456002419 dimer interface [polypeptide binding]; other site 1089456002420 structural Zn2+ binding site [ion binding]; other site 1089456002421 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1089456002422 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1089456002423 Walker A/P-loop; other site 1089456002424 ATP binding site [chemical binding]; other site 1089456002425 Q-loop/lid; other site 1089456002426 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1089456002427 ABC transporter signature motif; other site 1089456002428 Walker B; other site 1089456002429 D-loop; other site 1089456002430 H-loop/switch region; other site 1089456002431 GrpE; Region: GrpE; pfam01025 1089456002432 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 1089456002433 dimer interface [polypeptide binding]; other site 1089456002434 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1089456002435 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1089456002436 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1089456002437 nucleotide binding site [chemical binding]; other site 1089456002438 chaperone protein DnaJ; Provisional; Region: PRK10767 1089456002439 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 1089456002440 HSP70 interaction site [polypeptide binding]; other site 1089456002441 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1089456002442 substrate binding site [polypeptide binding]; other site 1089456002443 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1089456002444 Zn binding sites [ion binding]; other site 1089456002445 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1089456002446 dimer interface [polypeptide binding]; other site 1089456002447 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1089456002448 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1089456002449 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1089456002450 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1089456002451 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1089456002452 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1089456002453 catalytic site [active] 1089456002454 subunit interface [polypeptide binding]; other site 1089456002455 leucine export protein LeuE; Provisional; Region: PRK10958 1089456002456 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1089456002457 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456002458 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1089456002459 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1089456002460 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456002461 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456002462 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 1089456002463 IMP binding site; other site 1089456002464 dimer interface [polypeptide binding]; other site 1089456002465 interdomain contacts; other site 1089456002466 partial ornithine binding site; other site 1089456002467 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1089456002468 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1089456002469 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1089456002470 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1089456002471 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1089456002472 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 1089456002473 S-adenosylmethionine binding site [chemical binding]; other site 1089456002474 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1089456002475 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 1089456002476 Walker A motif; other site 1089456002477 ATP binding site [chemical binding]; other site 1089456002478 Walker B motif; other site 1089456002479 arginine finger; other site 1089456002480 Peptidase family M41; Region: Peptidase_M41; pfam01434 1089456002481 dihydropteroate synthase; Region: DHPS; TIGR01496 1089456002482 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 1089456002483 substrate binding pocket [chemical binding]; other site 1089456002484 dimer interface [polypeptide binding]; other site 1089456002485 inhibitor binding site; inhibition site 1089456002486 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1089456002487 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 1089456002488 active site 1089456002489 substrate binding site [chemical binding]; other site 1089456002490 metal binding site [ion binding]; metal-binding site 1089456002491 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 1089456002492 triosephosphate isomerase; Provisional; Region: PRK14567 1089456002493 substrate binding site [chemical binding]; other site 1089456002494 dimer interface [polypeptide binding]; other site 1089456002495 catalytic triad [active] 1089456002496 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1089456002497 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1089456002498 Sm and related proteins; Region: Sm_like; cl00259 1089456002499 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1089456002500 putative oligomer interface [polypeptide binding]; other site 1089456002501 putative RNA binding site [nucleotide binding]; other site 1089456002502 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1089456002503 NusA N-terminal domain; Region: NusA_N; pfam08529 1089456002504 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 1089456002505 RNA binding site [nucleotide binding]; other site 1089456002506 homodimer interface [polypeptide binding]; other site 1089456002507 NusA-like KH domain; Region: KH_5; pfam13184 1089456002508 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 1089456002509 G-X-X-G motif; other site 1089456002510 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1089456002511 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1089456002512 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1089456002513 translation initiation factor IF-2; Region: IF-2; TIGR00487 1089456002514 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1089456002515 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1089456002516 G1 box; other site 1089456002517 putative GEF interaction site [polypeptide binding]; other site 1089456002518 GTP/Mg2+ binding site [chemical binding]; other site 1089456002519 Switch I region; other site 1089456002520 G2 box; other site 1089456002521 G3 box; other site 1089456002522 Switch II region; other site 1089456002523 G4 box; other site 1089456002524 G5 box; other site 1089456002525 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 1089456002526 Translation-initiation factor 2; Region: IF-2; pfam11987 1089456002527 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 1089456002528 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1089456002529 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1089456002530 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1089456002531 RNA binding site [nucleotide binding]; other site 1089456002532 active site 1089456002533 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1089456002534 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 1089456002535 16S/18S rRNA binding site [nucleotide binding]; other site 1089456002536 S13e-L30e interaction site [polypeptide binding]; other site 1089456002537 25S rRNA binding site [nucleotide binding]; other site 1089456002538 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1089456002539 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1089456002540 RNase E interface [polypeptide binding]; other site 1089456002541 trimer interface [polypeptide binding]; other site 1089456002542 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1089456002543 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1089456002544 RNase E interface [polypeptide binding]; other site 1089456002545 trimer interface [polypeptide binding]; other site 1089456002546 active site 1089456002547 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 1089456002548 putative nucleic acid binding region [nucleotide binding]; other site 1089456002549 G-X-X-G motif; other site 1089456002550 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 1089456002551 RNA binding site [nucleotide binding]; other site 1089456002552 domain interface; other site 1089456002553 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1089456002554 BON domain; Region: BON; pfam04972 1089456002555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1089456002556 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1089456002557 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1089456002558 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1089456002559 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1089456002560 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1089456002561 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456002562 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1089456002563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 1089456002564 acetyl-CoA synthetase; Provisional; Region: PRK00174 1089456002565 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1089456002566 active site 1089456002567 CoA binding site [chemical binding]; other site 1089456002568 acyl-activating enzyme (AAE) consensus motif; other site 1089456002569 AMP binding site [chemical binding]; other site 1089456002570 acetate binding site [chemical binding]; other site 1089456002571 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1089456002572 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 1089456002573 active site 1089456002574 dimer interface [polypeptide binding]; other site 1089456002575 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 1089456002576 dimer interface [polypeptide binding]; other site 1089456002577 active site 1089456002578 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1089456002579 tetramerization interface [polypeptide binding]; other site 1089456002580 active site 1089456002581 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1089456002582 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1089456002583 active site 1089456002584 ATP-binding site [chemical binding]; other site 1089456002585 pantoate-binding site; other site 1089456002586 HXXH motif; other site 1089456002587 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 1089456002588 oligomerization interface [polypeptide binding]; other site 1089456002589 active site 1089456002590 metal binding site [ion binding]; metal-binding site 1089456002591 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 1089456002592 catalytic center binding site [active] 1089456002593 ATP binding site [chemical binding]; other site 1089456002594 poly(A) polymerase; Region: pcnB; TIGR01942 1089456002595 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1089456002596 active site 1089456002597 NTP binding site [chemical binding]; other site 1089456002598 metal binding triad [ion binding]; metal-binding site 1089456002599 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1089456002600 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1089456002601 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456002602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456002603 active site 1089456002604 phosphorylation site [posttranslational modification] 1089456002605 intermolecular recognition site; other site 1089456002606 dimerization interface [polypeptide binding]; other site 1089456002607 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 1089456002608 Walker A motif; other site 1089456002609 ATP binding site [chemical binding]; other site 1089456002610 Walker B motif; other site 1089456002611 arginine finger; other site 1089456002612 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1089456002613 Na binding site [ion binding]; other site 1089456002614 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1089456002615 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 1089456002616 putative active site [active] 1089456002617 heme pocket [chemical binding]; other site 1089456002618 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 1089456002619 dimer interface [polypeptide binding]; other site 1089456002620 phosphorylation site [posttranslational modification] 1089456002621 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456002622 ATP binding site [chemical binding]; other site 1089456002623 Mg2+ binding site [ion binding]; other site 1089456002624 G-X-G motif; other site 1089456002625 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1089456002626 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1089456002627 active site 1089456002628 HIGH motif; other site 1089456002629 nucleotide binding site [chemical binding]; other site 1089456002630 KMSKS motif; other site 1089456002631 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1089456002632 hypothetical protein; Provisional; Region: PRK08960 1089456002633 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 1089456002634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456002635 homodimer interface [polypeptide binding]; other site 1089456002636 catalytic residue [active] 1089456002637 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1089456002638 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1089456002639 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1089456002640 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 1089456002641 Predicted metalloprotease [General function prediction only]; Region: COG2321 1089456002642 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1089456002643 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1089456002644 aminotransferase; Validated; Region: PRK08175 1089456002645 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 1089456002646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456002647 homodimer interface [polypeptide binding]; other site 1089456002648 catalytic residue [active] 1089456002649 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1089456002650 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1089456002651 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 1089456002652 iron-sulfur cluster [ion binding]; other site 1089456002653 [2Fe-2S] cluster binding site [ion binding]; other site 1089456002654 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1089456002655 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 1089456002656 N-terminal plug; other site 1089456002657 ligand-binding site [chemical binding]; other site 1089456002658 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1089456002659 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1089456002660 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1089456002661 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1089456002662 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 1089456002663 putative hemin binding site; other site 1089456002664 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1089456002665 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 1089456002666 ABC-ATPase subunit interface; other site 1089456002667 dimer interface [polypeptide binding]; other site 1089456002668 putative PBP binding regions; other site 1089456002669 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1089456002670 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1089456002671 Walker A/P-loop; other site 1089456002672 ATP binding site [chemical binding]; other site 1089456002673 Q-loop/lid; other site 1089456002674 ABC transporter signature motif; other site 1089456002675 Walker B; other site 1089456002676 D-loop; other site 1089456002677 H-loop/switch region; other site 1089456002678 Uncharacterized iron-regulated protein [Function unknown]; Region: PhuW; COG3016 1089456002679 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 1089456002680 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 1089456002681 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1089456002682 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1089456002683 VirB7 interaction site; other site 1089456002684 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1089456002685 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1089456002686 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1089456002687 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 1089456002688 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1089456002689 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 1089456002690 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1089456002691 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1089456002692 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 1089456002693 ATP binding site [chemical binding]; other site 1089456002694 Walker A motif; other site 1089456002695 hexamer interface [polypeptide binding]; other site 1089456002696 Walker B motif; other site 1089456002697 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1089456002698 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 1089456002699 Walker A motif; other site 1089456002700 ATP binding site [chemical binding]; other site 1089456002701 Walker B motif; other site 1089456002702 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456002703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456002704 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1089456002705 putative substrate binding pocket [chemical binding]; other site 1089456002706 putative dimerization interface [polypeptide binding]; other site 1089456002707 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1089456002708 hydrophobic ligand binding site; other site 1089456002709 Integrase core domain; Region: rve_3; pfam13683 1089456002710 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1089456002711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456002712 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 1089456002713 dimerization interface [polypeptide binding]; other site 1089456002714 substrate binding pocket [chemical binding]; other site 1089456002715 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456002716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456002717 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456002718 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456002719 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1089456002720 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1089456002721 Permease; Region: Permease; pfam02405 1089456002722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456002723 Q-loop/lid; other site 1089456002724 ABC transporter signature motif; other site 1089456002725 Walker B; other site 1089456002726 D-loop; other site 1089456002727 H-loop/switch region; other site 1089456002728 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1089456002729 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1089456002730 Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: TraF; COG4959 1089456002731 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1089456002732 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 1089456002733 ParA-like protein; Provisional; Region: PHA02518 1089456002734 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 1089456002735 P-loop; other site 1089456002736 Magnesium ion binding site [ion binding]; other site 1089456002737 Uncharacterized conserved protein [Function unknown]; Region: COG5419 1089456002738 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 1089456002739 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1089456002740 ParB-like nuclease domain; Region: ParB; smart00470 1089456002741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 1089456002742 hypothetical protein; Reviewed; Region: PRK00024 1089456002743 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1089456002744 MPN+ (JAMM) motif; other site 1089456002745 Zinc-binding site [ion binding]; other site 1089456002746 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1089456002747 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1089456002748 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 1089456002749 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1089456002750 active site 1089456002751 Int/Topo IB signature motif; other site 1089456002752 DNA binding site [nucleotide binding] 1089456002753 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 1089456002754 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1089456002755 ligand binding site [chemical binding]; other site 1089456002756 flexible hinge region; other site 1089456002757 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1089456002758 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1089456002759 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1089456002760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1089456002761 Predicted kinase [General function prediction only]; Region: COG0645 1089456002762 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 1089456002763 ATP-binding site [chemical binding]; other site 1089456002764 Gluconate-6-phosphate binding site [chemical binding]; other site 1089456002765 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1089456002766 Transglycosylase; Region: Transgly; pfam00912 1089456002767 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1089456002768 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 1089456002769 TPR motif; other site 1089456002770 binding surface 1089456002771 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1089456002772 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1089456002773 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1089456002774 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1089456002775 PYR/PP interface [polypeptide binding]; other site 1089456002776 dimer interface [polypeptide binding]; other site 1089456002777 TPP binding site [chemical binding]; other site 1089456002778 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456002779 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 1089456002780 TPP-binding site [chemical binding]; other site 1089456002781 dimer interface [polypeptide binding]; other site 1089456002782 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1089456002783 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1089456002784 putative valine binding site [chemical binding]; other site 1089456002785 dimer interface [polypeptide binding]; other site 1089456002786 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1089456002787 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1089456002788 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1089456002789 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1089456002790 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1089456002791 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1089456002792 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1089456002793 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 1089456002794 Moco binding site; other site 1089456002795 metal coordination site [ion binding]; other site 1089456002796 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1089456002797 Paraquat-inducible protein A; Region: PqiA; pfam04403 1089456002798 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1089456002799 Paraquat-inducible protein A; Region: PqiA; pfam04403 1089456002800 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1089456002801 mce related protein; Region: MCE; pfam02470 1089456002802 mce related protein; Region: MCE; pfam02470 1089456002803 mce related protein; Region: MCE; pfam02470 1089456002804 mce related protein; Region: MCE; pfam02470 1089456002805 mce related protein; Region: MCE; pfam02470 1089456002806 mce related protein; Region: MCE; pfam02470 1089456002807 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1089456002808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456002809 dimer interface [polypeptide binding]; other site 1089456002810 conserved gate region; other site 1089456002811 putative PBP binding loops; other site 1089456002812 ABC-ATPase subunit interface; other site 1089456002813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456002814 dimer interface [polypeptide binding]; other site 1089456002815 conserved gate region; other site 1089456002816 putative PBP binding loops; other site 1089456002817 ABC-ATPase subunit interface; other site 1089456002818 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1089456002819 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1089456002820 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1089456002821 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1089456002822 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1089456002823 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456002824 Peptidase family C69; Region: Peptidase_C69; cl17793 1089456002825 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 1089456002826 active site clefts [active] 1089456002827 zinc binding site [ion binding]; other site 1089456002828 dimer interface [polypeptide binding]; other site 1089456002829 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1089456002830 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 1089456002831 N-terminal plug; other site 1089456002832 ligand-binding site [chemical binding]; other site 1089456002833 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1089456002834 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 1089456002835 sequence-specific DNA binding site [nucleotide binding]; other site 1089456002836 salt bridge; other site 1089456002837 GTP-binding protein YchF; Reviewed; Region: PRK09601 1089456002838 YchF GTPase; Region: YchF; cd01900 1089456002839 G1 box; other site 1089456002840 GTP/Mg2+ binding site [chemical binding]; other site 1089456002841 Switch I region; other site 1089456002842 G2 box; other site 1089456002843 Switch II region; other site 1089456002844 G3 box; other site 1089456002845 G4 box; other site 1089456002846 G5 box; other site 1089456002847 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 1089456002848 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 1089456002849 putative active site [active] 1089456002850 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1089456002851 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1089456002852 CTC domain interface [polypeptide binding]; other site 1089456002853 L16 interface [polypeptide binding]; other site 1089456002854 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1089456002855 metal binding site [ion binding]; metal-binding site 1089456002856 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1089456002857 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1089456002858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456002859 active site 1089456002860 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1089456002861 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1089456002862 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1089456002863 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 1089456002864 TPR motif; other site 1089456002865 binding surface 1089456002866 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 1089456002867 binding surface 1089456002868 TPR motif; other site 1089456002869 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1089456002870 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 1089456002871 binding surface 1089456002872 TPR motif; other site 1089456002873 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1089456002874 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 1089456002875 binding surface 1089456002876 TPR motif; other site 1089456002877 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1089456002878 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1089456002879 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1089456002880 tRNA; other site 1089456002881 putative tRNA binding site [nucleotide binding]; other site 1089456002882 putative NADP binding site [chemical binding]; other site 1089456002883 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1089456002884 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1089456002885 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1089456002886 RF-1 domain; Region: RF-1; pfam00472 1089456002887 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1089456002888 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 1089456002889 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1089456002890 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 1089456002891 ATP binding site [chemical binding]; other site 1089456002892 substrate interface [chemical binding]; other site 1089456002893 glutamate racemase; Provisional; Region: PRK00865 1089456002894 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1089456002895 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1089456002896 DNA photolyase; Region: DNA_photolyase; pfam00875 1089456002897 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1089456002898 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1089456002899 DNA binding residues [nucleotide binding] 1089456002900 B12 binding domain; Region: B12-binding_2; pfam02607 1089456002901 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1089456002902 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1089456002903 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1089456002904 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1089456002905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456002906 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1089456002907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456002908 NAD(P) binding site [chemical binding]; other site 1089456002909 active site 1089456002910 ferrochelatase; Reviewed; Region: hemH; PRK00035 1089456002911 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 1089456002912 C-terminal domain interface [polypeptide binding]; other site 1089456002913 active site 1089456002914 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 1089456002915 active site 1089456002916 N-terminal domain interface [polypeptide binding]; other site 1089456002917 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456002918 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456002919 putative substrate translocation pore; other site 1089456002920 Spore Coat Protein U domain; Region: SCPU; pfam05229 1089456002921 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1089456002922 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1089456002923 PapC N-terminal domain; Region: PapC_N; pfam13954 1089456002924 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1089456002925 PapC C-terminal domain; Region: PapC_C; pfam13953 1089456002926 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1089456002927 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1089456002928 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1089456002929 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1089456002930 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1089456002931 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1089456002932 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456002933 active site 1089456002934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456002935 active site 1089456002936 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1089456002937 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 1089456002938 dimer interface [polypeptide binding]; other site 1089456002939 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456002940 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 1089456002941 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1089456002942 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1089456002943 putative acyl-acceptor binding pocket; other site 1089456002944 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1089456002945 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1089456002946 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1089456002947 MgtC family; Region: MgtC; pfam02308 1089456002948 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1089456002949 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 1089456002950 dimerization interface [polypeptide binding]; other site 1089456002951 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456002952 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456002953 dimer interface [polypeptide binding]; other site 1089456002954 putative CheW interface [polypeptide binding]; other site 1089456002955 Peptidase family M48; Region: Peptidase_M48; pfam01435 1089456002956 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1089456002957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456002958 NAD(P) binding site [chemical binding]; other site 1089456002959 active site 1089456002960 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1089456002961 Predicted membrane protein [Function unknown]; Region: COG2119 1089456002962 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1089456002963 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1089456002964 lysine transporter; Provisional; Region: PRK10836 1089456002965 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1089456002966 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1089456002967 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 1089456002968 S-adenosylmethionine binding site [chemical binding]; other site 1089456002969 glycerate dehydrogenase; Provisional; Region: PRK06487 1089456002970 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1089456002971 putative ligand binding site [chemical binding]; other site 1089456002972 putative NAD binding site [chemical binding]; other site 1089456002973 catalytic site [active] 1089456002974 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1089456002975 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1089456002976 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1089456002977 H+ Antiporter protein; Region: 2A0121; TIGR00900 1089456002978 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1089456002979 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456002980 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1089456002981 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456002982 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1089456002983 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1089456002984 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456002985 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456002986 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456002987 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1089456002988 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1089456002989 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1089456002990 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1089456002991 Ligand binding site; other site 1089456002992 metal-binding site 1089456002993 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1089456002994 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 1089456002995 S-adenosylmethionine binding site [chemical binding]; other site 1089456002996 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1089456002997 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1089456002998 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 1089456002999 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1089456003000 FAD binding pocket [chemical binding]; other site 1089456003001 FAD binding motif [chemical binding]; other site 1089456003002 phosphate binding motif [ion binding]; other site 1089456003003 beta-alpha-beta structure motif; other site 1089456003004 NAD binding pocket [chemical binding]; other site 1089456003005 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1089456003006 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1089456003007 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1089456003008 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1089456003009 tetramer interface [polypeptide binding]; other site 1089456003010 heme binding pocket [chemical binding]; other site 1089456003011 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1089456003012 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 1089456003013 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1089456003014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1089456003015 DNA repair protein RadA; Provisional; Region: PRK11823 1089456003016 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 1089456003017 Walker A motif/ATP binding site; other site 1089456003018 ATP binding site [chemical binding]; other site 1089456003019 Walker B motif; other site 1089456003020 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1089456003021 PilZ domain; Region: PilZ; pfam07238 1089456003022 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1089456003023 carbon starvation protein A; Provisional; Region: PRK15015 1089456003024 Carbon starvation protein CstA; Region: CstA; pfam02554 1089456003025 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1089456003026 Uncharacterized small protein [Function unknown]; Region: COG2879 1089456003027 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1089456003028 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 1089456003029 P-loop, Walker A motif; other site 1089456003030 Base recognition motif; other site 1089456003031 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1089456003032 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1089456003033 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 1089456003034 dimer interface [polypeptide binding]; other site 1089456003035 active site 1089456003036 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1089456003037 folate binding site [chemical binding]; other site 1089456003038 PAS domain; Region: PAS_9; pfam13426 1089456003039 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 1089456003040 PAS fold; Region: PAS_3; pfam08447 1089456003041 putative active site [active] 1089456003042 heme pocket [chemical binding]; other site 1089456003043 PAS domain; Region: PAS_9; pfam13426 1089456003044 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1089456003045 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 1089456003046 PAS domain; Region: PAS_9; pfam13426 1089456003047 putative active site [active] 1089456003048 heme pocket [chemical binding]; other site 1089456003049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456003050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456003051 metal binding site [ion binding]; metal-binding site 1089456003052 active site 1089456003053 I-site; other site 1089456003054 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 1089456003055 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456003056 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1089456003057 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456003058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456003059 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456003060 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1089456003061 Protein export membrane protein; Region: SecD_SecF; cl14618 1089456003062 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1089456003063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456003064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456003065 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1089456003066 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456003067 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456003068 ABC transporter; Region: ABC_tran_2; pfam12848 1089456003069 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456003070 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1089456003071 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1089456003072 Walker A/P-loop; other site 1089456003073 ATP binding site [chemical binding]; other site 1089456003074 Q-loop/lid; other site 1089456003075 ABC transporter signature motif; other site 1089456003076 Walker B; other site 1089456003077 D-loop; other site 1089456003078 H-loop/switch region; other site 1089456003079 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1089456003080 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1089456003081 FtsX-like permease family; Region: FtsX; pfam02687 1089456003082 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456003083 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456003084 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456003085 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456003086 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1089456003087 glutamate dehydrogenase; Provisional; Region: PRK09414 1089456003088 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1089456003089 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1089456003090 NAD(P) binding site [chemical binding]; other site 1089456003091 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1089456003092 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 1089456003093 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 1089456003094 putative active site [active] 1089456003095 adenylation catalytic residue [active] 1089456003096 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1089456003097 active site 1089456003098 NTP binding site [chemical binding]; other site 1089456003099 metal binding triad [ion binding]; metal-binding site 1089456003100 antibiotic binding site [chemical binding]; other site 1089456003101 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1089456003102 hypothetical protein; Reviewed; Region: PRK09588 1089456003103 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1089456003104 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 1089456003105 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 1089456003106 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 1089456003107 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 1089456003108 Walker A motif; other site 1089456003109 ATP binding site [chemical binding]; other site 1089456003110 Walker B motif; other site 1089456003111 arginine finger; other site 1089456003112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 1089456003113 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1089456003114 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1089456003115 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1089456003116 AAA domain; Region: AAA_32; pfam13654 1089456003117 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1089456003118 methane monooxygenase/ammonia monooxygenase, subunit A; Region: CH4_NH3mon_ox_A; TIGR03080 1089456003119 hypothetical protein; Provisional; Region: PRK05208 1089456003120 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1089456003121 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1089456003122 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1089456003123 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456003124 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456003125 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456003126 Cytochrome c [Energy production and conversion]; Region: COG3258 1089456003127 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456003128 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1089456003129 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1089456003130 substrate binding pocket [chemical binding]; other site 1089456003131 chain length determination region; other site 1089456003132 substrate-Mg2+ binding site; other site 1089456003133 catalytic residues [active] 1089456003134 aspartate-rich region 1; other site 1089456003135 active site lid residues [active] 1089456003136 aspartate-rich region 2; other site 1089456003137 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1089456003138 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1089456003139 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1089456003140 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1089456003141 GTP1/OBG; Region: GTP1_OBG; pfam01018 1089456003142 Obg GTPase; Region: Obg; cd01898 1089456003143 G1 box; other site 1089456003144 GTP/Mg2+ binding site [chemical binding]; other site 1089456003145 Switch I region; other site 1089456003146 G2 box; other site 1089456003147 G3 box; other site 1089456003148 Switch II region; other site 1089456003149 G4 box; other site 1089456003150 G5 box; other site 1089456003151 gamma-glutamyl kinase; Provisional; Region: PRK05429 1089456003152 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 1089456003153 nucleotide binding site [chemical binding]; other site 1089456003154 homotetrameric interface [polypeptide binding]; other site 1089456003155 putative phosphate binding site [ion binding]; other site 1089456003156 putative allosteric binding site; other site 1089456003157 PUA domain; Region: PUA; pfam01472 1089456003158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1089456003159 CreA protein; Region: CreA; pfam05981 1089456003160 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1089456003161 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1089456003162 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1089456003163 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1089456003164 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1089456003165 active site 1089456003166 Riboflavin kinase; Region: Flavokinase; pfam01687 1089456003167 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1089456003168 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1089456003169 active site 1089456003170 HIGH motif; other site 1089456003171 nucleotide binding site [chemical binding]; other site 1089456003172 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1089456003173 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1089456003174 active site 1089456003175 KMSKS motif; other site 1089456003176 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1089456003177 tRNA binding surface [nucleotide binding]; other site 1089456003178 anticodon binding site; other site 1089456003179 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1089456003180 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1089456003181 lipoprotein signal peptidase; Provisional; Region: PRK14787 1089456003182 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1089456003183 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1089456003184 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1089456003185 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1089456003186 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1089456003187 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1089456003188 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1089456003189 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1089456003190 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1089456003191 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1089456003192 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1089456003193 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 1089456003194 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1089456003195 Type II transport protein GspH; Region: GspH; pfam12019 1089456003196 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456003197 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1089456003198 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456003199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456003200 active site 1089456003201 phosphorylation site [posttranslational modification] 1089456003202 intermolecular recognition site; other site 1089456003203 dimerization interface [polypeptide binding]; other site 1089456003204 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 1089456003205 Walker A motif; other site 1089456003206 ATP binding site [chemical binding]; other site 1089456003207 Walker B motif; other site 1089456003208 arginine finger; other site 1089456003209 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456003210 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1089456003211 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 1089456003212 dimer interface [polypeptide binding]; other site 1089456003213 phosphorylation site [posttranslational modification] 1089456003214 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456003215 ATP binding site [chemical binding]; other site 1089456003216 Mg2+ binding site [ion binding]; other site 1089456003217 G-X-G motif; other site 1089456003218 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1089456003219 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1089456003220 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 1089456003221 RNA binding surface [nucleotide binding]; other site 1089456003222 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1089456003223 active site 1089456003224 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1089456003225 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1089456003226 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1089456003227 Clp amino terminal domain; Region: Clp_N; pfam02861 1089456003228 Clp amino terminal domain; Region: Clp_N; pfam02861 1089456003229 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 1089456003230 Walker A motif; other site 1089456003231 ATP binding site [chemical binding]; other site 1089456003232 Walker B motif; other site 1089456003233 arginine finger; other site 1089456003234 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 1089456003235 Walker A motif; other site 1089456003236 ATP binding site [chemical binding]; other site 1089456003237 Walker B motif; other site 1089456003238 arginine finger; other site 1089456003239 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1089456003240 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1089456003241 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1089456003242 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1089456003243 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1089456003244 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 1089456003245 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1089456003246 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456003247 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1089456003248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1089456003249 MOSC domain; Region: MOSC; pfam03473 1089456003250 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1089456003251 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456003252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456003253 Coenzyme A binding pocket [chemical binding]; other site 1089456003254 Predicted membrane protein [Function unknown]; Region: COG3235 1089456003255 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1089456003256 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1089456003257 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1089456003258 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 1089456003259 CoA-binding site [chemical binding]; other site 1089456003260 ATP-binding [chemical binding]; other site 1089456003261 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 1089456003262 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1089456003263 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1089456003264 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1089456003265 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456003266 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456003267 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1089456003268 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1089456003269 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 1089456003270 Walker A motif; other site 1089456003271 ATP binding site [chemical binding]; other site 1089456003272 Walker B motif; other site 1089456003273 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1089456003274 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 1089456003275 dimerization interface [polypeptide binding]; other site 1089456003276 active site 1089456003277 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1089456003278 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1089456003279 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 1089456003280 amidase catalytic site [active] 1089456003281 Zn binding residues [ion binding]; other site 1089456003282 substrate binding site [chemical binding]; other site 1089456003283 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1089456003284 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1089456003285 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 1089456003286 dimerization interface [polypeptide binding]; other site 1089456003287 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456003288 dimer interface [polypeptide binding]; other site 1089456003289 putative CheW interface [polypeptide binding]; other site 1089456003290 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1089456003291 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1089456003292 dimer interface [polypeptide binding]; other site 1089456003293 active site 1089456003294 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1089456003295 catalytic residues [active] 1089456003296 substrate binding site [chemical binding]; other site 1089456003297 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 1089456003298 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456003299 hypothetical protein; Provisional; Region: PRK10649 1089456003300 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1089456003301 Sulfatase; Region: Sulfatase; pfam00884 1089456003302 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1089456003303 Sel1-like repeats; Region: SEL1; smart00671 1089456003304 Sel1-like repeats; Region: SEL1; smart00671 1089456003305 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1089456003306 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1089456003307 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 1089456003308 N-terminal plug; other site 1089456003309 ligand-binding site [chemical binding]; other site 1089456003310 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1089456003311 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1089456003312 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1089456003313 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1089456003314 Flavodoxin; Region: Flavodoxin_1; pfam00258 1089456003315 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 1089456003316 FAD binding pocket [chemical binding]; other site 1089456003317 FAD binding motif [chemical binding]; other site 1089456003318 catalytic residues [active] 1089456003319 NAD binding pocket [chemical binding]; other site 1089456003320 phosphate binding motif [ion binding]; other site 1089456003321 beta-alpha-beta structure motif; other site 1089456003322 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1089456003323 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1089456003324 putative active site [active] 1089456003325 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1089456003326 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1089456003327 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1089456003328 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456003329 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 1089456003330 putative DNA binding site [nucleotide binding]; other site 1089456003331 putative Zn2+ binding site [ion binding]; other site 1089456003332 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456003333 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456003334 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1089456003335 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1089456003336 Walker A/P-loop; other site 1089456003337 ATP binding site [chemical binding]; other site 1089456003338 Q-loop/lid; other site 1089456003339 ABC transporter signature motif; other site 1089456003340 Walker B; other site 1089456003341 D-loop; other site 1089456003342 H-loop/switch region; other site 1089456003343 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1089456003344 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1089456003345 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1089456003346 Walker A/P-loop; other site 1089456003347 ATP binding site [chemical binding]; other site 1089456003348 Q-loop/lid; other site 1089456003349 ABC transporter signature motif; other site 1089456003350 Walker B; other site 1089456003351 D-loop; other site 1089456003352 H-loop/switch region; other site 1089456003353 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1089456003354 dipeptide transporter; Provisional; Region: PRK10913 1089456003355 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1089456003356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456003357 putative PBP binding loops; other site 1089456003358 dimer interface [polypeptide binding]; other site 1089456003359 ABC-ATPase subunit interface; other site 1089456003360 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1089456003361 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456003362 dimer interface [polypeptide binding]; other site 1089456003363 conserved gate region; other site 1089456003364 putative PBP binding loops; other site 1089456003365 ABC-ATPase subunit interface; other site 1089456003366 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1089456003367 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1089456003368 peptide binding site [polypeptide binding]; other site 1089456003369 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456003370 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1089456003371 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1089456003372 peptide binding site [polypeptide binding]; other site 1089456003373 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 1089456003374 non-specific DNA binding site [nucleotide binding]; other site 1089456003375 salt bridge; other site 1089456003376 sequence-specific DNA binding site [nucleotide binding]; other site 1089456003377 Cupin domain; Region: Cupin_2; pfam07883 1089456003378 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1089456003379 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1089456003380 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 1089456003381 active site 1089456003382 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1089456003383 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1089456003384 peptide binding site [polypeptide binding]; other site 1089456003385 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1089456003386 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1089456003387 peptide binding site [polypeptide binding]; other site 1089456003388 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 1089456003389 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1089456003390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456003391 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 1089456003392 phosphorylation site [posttranslational modification] 1089456003393 dimer interface [polypeptide binding]; other site 1089456003394 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1089456003395 ATP binding site [chemical binding]; other site 1089456003396 G-X-G motif; other site 1089456003397 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1089456003398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456003399 active site 1089456003400 phosphorylation site [posttranslational modification] 1089456003401 intermolecular recognition site; other site 1089456003402 dimerization interface [polypeptide binding]; other site 1089456003403 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456003404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1089456003405 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1089456003406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 1089456003407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 1089456003408 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1089456003409 MG2 domain; Region: A2M_N; pfam01835 1089456003410 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1089456003411 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 1089456003412 Predicted secreted protein [Function unknown]; Region: COG5445 1089456003413 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1089456003414 Predicted secreted protein [Function unknown]; Region: COG5445 1089456003415 Stage II sporulation protein; Region: SpoIID; pfam08486 1089456003416 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1089456003417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1089456003418 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cl17565 1089456003419 putative metal binding site [ion binding]; other site 1089456003420 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1089456003421 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1089456003422 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1089456003423 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1089456003424 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1089456003425 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1089456003426 GatB domain; Region: GatB_Yqey; smart00845 1089456003427 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1089456003428 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1089456003429 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1089456003430 rod shape-determining protein MreB; Provisional; Region: PRK13927 1089456003431 MreB and similar proteins; Region: MreB_like; cd10225 1089456003432 nucleotide binding site [chemical binding]; other site 1089456003433 Mg binding site [ion binding]; other site 1089456003434 putative protofilament interaction site [polypeptide binding]; other site 1089456003435 RodZ interaction site [polypeptide binding]; other site 1089456003436 rod shape-determining protein MreC; Provisional; Region: PRK13922 1089456003437 rod shape-determining protein MreC; Region: MreC; pfam04085 1089456003438 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1089456003439 Maf-like protein; Region: Maf; pfam02545 1089456003440 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 1089456003441 active site 1089456003442 dimer interface [polypeptide binding]; other site 1089456003443 ribonuclease G; Provisional; Region: PRK11712 1089456003444 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 1089456003445 homodimer interface [polypeptide binding]; other site 1089456003446 oligonucleotide binding site [chemical binding]; other site 1089456003447 Predicted membrane protein [Function unknown]; Region: COG3164 1089456003448 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1089456003449 nitrilase; Region: PLN02798 1089456003450 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1089456003451 putative active site [active] 1089456003452 catalytic triad [active] 1089456003453 dimer interface [polypeptide binding]; other site 1089456003454 protease TldD; Provisional; Region: tldD; PRK10735 1089456003455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 1089456003456 peptidase PmbA; Provisional; Region: PRK11040 1089456003457 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1089456003458 Class II fumarases; Region: Fumarase_classII; cd01362 1089456003459 active site 1089456003460 tetramer interface [polypeptide binding]; other site 1089456003461 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 1089456003462 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1089456003463 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1089456003464 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1089456003465 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1089456003466 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 1089456003467 dimerization domain swap beta strand [polypeptide binding]; other site 1089456003468 regulatory protein interface [polypeptide binding]; other site 1089456003469 active site 1089456003470 regulatory phosphorylation site [posttranslational modification]; other site 1089456003471 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1089456003472 AAA domain; Region: AAA_18; pfam13238 1089456003473 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 1089456003474 active site 1089456003475 phosphorylation site [posttranslational modification] 1089456003476 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 1089456003477 30S subunit binding site; other site 1089456003478 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1089456003479 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1089456003480 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1089456003481 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1089456003482 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1089456003483 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1089456003484 Walker A/P-loop; other site 1089456003485 ATP binding site [chemical binding]; other site 1089456003486 Q-loop/lid; other site 1089456003487 ABC transporter signature motif; other site 1089456003488 Walker B; other site 1089456003489 D-loop; other site 1089456003490 H-loop/switch region; other site 1089456003491 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1089456003492 OstA-like protein; Region: OstA; pfam03968 1089456003493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1089456003494 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1089456003495 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 1089456003496 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1089456003497 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1089456003498 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 1089456003499 putative active site [active] 1089456003500 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 1089456003501 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1089456003502 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1089456003503 Walker A/P-loop; other site 1089456003504 ATP binding site [chemical binding]; other site 1089456003505 Q-loop/lid; other site 1089456003506 ABC transporter signature motif; other site 1089456003507 Walker B; other site 1089456003508 D-loop; other site 1089456003509 H-loop/switch region; other site 1089456003510 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1089456003511 conserved hypothetical integral membrane protein; Region: TIGR00056 1089456003512 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1089456003513 mce related protein; Region: MCE; pfam02470 1089456003514 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1089456003515 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 1089456003516 anti sigma factor interaction site; other site 1089456003517 regulatory phosphorylation site [posttranslational modification]; other site 1089456003518 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1089456003519 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1089456003520 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 1089456003521 hinge; other site 1089456003522 active site 1089456003523 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1089456003524 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1089456003525 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1089456003526 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 1089456003527 NAD binding site [chemical binding]; other site 1089456003528 dimerization interface [polypeptide binding]; other site 1089456003529 product binding site; other site 1089456003530 substrate binding site [chemical binding]; other site 1089456003531 zinc binding site [ion binding]; other site 1089456003532 catalytic residues [active] 1089456003533 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1089456003534 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 1089456003535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456003536 homodimer interface [polypeptide binding]; other site 1089456003537 catalytic residue [active] 1089456003538 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1089456003539 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 1089456003540 protein binding site [polypeptide binding]; other site 1089456003541 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1089456003542 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1089456003543 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 1089456003544 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 1089456003545 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456003546 catalytic residue [active] 1089456003547 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1089456003548 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 1089456003549 Active Sites [active] 1089456003550 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1089456003551 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1089456003552 CysD dimerization site [polypeptide binding]; other site 1089456003553 G1 box; other site 1089456003554 putative GEF interaction site [polypeptide binding]; other site 1089456003555 GTP/Mg2+ binding site [chemical binding]; other site 1089456003556 Switch I region; other site 1089456003557 G2 box; other site 1089456003558 G3 box; other site 1089456003559 Switch II region; other site 1089456003560 G4 box; other site 1089456003561 G5 box; other site 1089456003562 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 1089456003563 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 1089456003564 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 1089456003565 ligand-binding site [chemical binding]; other site 1089456003566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1089456003567 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1089456003568 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1089456003569 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1089456003570 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1089456003571 active site 1089456003572 HIGH motif; other site 1089456003573 dimer interface [polypeptide binding]; other site 1089456003574 KMSKS motif; other site 1089456003575 Predicted ATPase [General function prediction only]; Region: COG1485 1089456003576 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1089456003577 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1089456003578 conserved cys residue [active] 1089456003579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456003580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456003581 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456003582 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456003583 active site 1089456003584 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 1089456003585 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456003586 active site 1089456003587 catalytic tetrad [active] 1089456003588 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 1089456003589 23S rRNA interface [nucleotide binding]; other site 1089456003590 L3 interface [polypeptide binding]; other site 1089456003591 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1089456003592 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1089456003593 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 1089456003594 [2Fe-2S] cluster binding site [ion binding]; other site 1089456003595 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1089456003596 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 1089456003597 Qi binding site; other site 1089456003598 intrachain domain interface; other site 1089456003599 interchain domain interface [polypeptide binding]; other site 1089456003600 heme bH binding site [chemical binding]; other site 1089456003601 heme bL binding site [chemical binding]; other site 1089456003602 Qo binding site; other site 1089456003603 interchain domain interface [polypeptide binding]; other site 1089456003604 intrachain domain interface; other site 1089456003605 Qi binding site; other site 1089456003606 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1089456003607 Qo binding site; other site 1089456003608 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1089456003609 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1089456003610 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 1089456003611 C-terminal domain interface [polypeptide binding]; other site 1089456003612 putative GSH binding site (G-site) [chemical binding]; other site 1089456003613 dimer interface [polypeptide binding]; other site 1089456003614 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1089456003615 dimer interface [polypeptide binding]; other site 1089456003616 N-terminal domain interface [polypeptide binding]; other site 1089456003617 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1089456003618 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1089456003619 BON domain; Region: BON; pfam04972 1089456003620 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 1089456003621 dimer interface [polypeptide binding]; other site 1089456003622 active site 1089456003623 hypothetical protein; Reviewed; Region: PRK12497 1089456003624 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 1089456003625 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1089456003626 putative ligand binding site [chemical binding]; other site 1089456003627 Predicted methyltransferases [General function prediction only]; Region: COG0313 1089456003628 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1089456003629 putative SAM binding site [chemical binding]; other site 1089456003630 putative homodimer interface [polypeptide binding]; other site 1089456003631 cell division protein MraZ; Reviewed; Region: PRK00326 1089456003632 MraZ protein; Region: MraZ; pfam02381 1089456003633 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1089456003634 MraW methylase family; Region: Methyltransf_5; cl17771 1089456003635 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1089456003636 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1089456003637 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1089456003638 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1089456003639 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1089456003640 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1089456003641 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1089456003642 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1089456003643 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1089456003644 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1089456003645 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1089456003646 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1089456003647 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1089456003648 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 1089456003649 Mg++ binding site [ion binding]; other site 1089456003650 putative catalytic motif [active] 1089456003651 putative substrate binding site [chemical binding]; other site 1089456003652 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1089456003653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456003654 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1089456003655 cell division protein FtsW; Region: ftsW; TIGR02614 1089456003656 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1089456003657 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 1089456003658 active site 1089456003659 homodimer interface [polypeptide binding]; other site 1089456003660 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1089456003661 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1089456003662 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1089456003663 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1089456003664 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1089456003665 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1089456003666 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456003667 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1089456003668 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1089456003669 Cell division protein FtsQ; Region: FtsQ; pfam03799 1089456003670 cell division protein FtsA; Region: ftsA; TIGR01174 1089456003671 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1089456003672 nucleotide binding site [chemical binding]; other site 1089456003673 Cell division protein FtsA; Region: FtsA; pfam14450 1089456003674 cell division protein FtsZ; Validated; Region: PRK09330 1089456003675 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 1089456003676 nucleotide binding site [chemical binding]; other site 1089456003677 SulA interaction site; other site 1089456003678 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1089456003679 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1089456003680 Protein of unknown function (DUF721); Region: DUF721; cl02324 1089456003681 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1089456003682 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456003683 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1089456003684 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 1089456003685 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1089456003686 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 1089456003687 nucleotide binding region [chemical binding]; other site 1089456003688 ATP-binding site [chemical binding]; other site 1089456003689 SEC-C motif; Region: SEC-C; pfam02810 1089456003690 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 1089456003691 heterotetramer interface [polypeptide binding]; other site 1089456003692 active site pocket [active] 1089456003693 cleavage site 1089456003694 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 1089456003695 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456003696 putative C-terminal domain interface [polypeptide binding]; other site 1089456003697 putative GSH binding site (G-site) [chemical binding]; other site 1089456003698 putative dimer interface [polypeptide binding]; other site 1089456003699 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1089456003700 putative N-terminal domain interface [polypeptide binding]; other site 1089456003701 putative dimer interface [polypeptide binding]; other site 1089456003702 putative substrate binding pocket (H-site) [chemical binding]; other site 1089456003703 hypothetical protein; Provisional; Region: PRK08999 1089456003704 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 1089456003705 active site 1089456003706 8-oxo-dGMP binding site [chemical binding]; other site 1089456003707 nudix motif; other site 1089456003708 metal binding site [ion binding]; metal-binding site 1089456003709 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 1089456003710 thiamine phosphate binding site [chemical binding]; other site 1089456003711 active site 1089456003712 pyrophosphate binding site [ion binding]; other site 1089456003713 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1089456003714 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 1089456003715 dimerization interface [polypeptide binding]; other site 1089456003716 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1089456003717 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 1089456003718 putative active site [active] 1089456003719 heme pocket [chemical binding]; other site 1089456003720 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 1089456003721 dimer interface [polypeptide binding]; other site 1089456003722 phosphorylation site [posttranslational modification] 1089456003723 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456003724 ATP binding site [chemical binding]; other site 1089456003725 Mg2+ binding site [ion binding]; other site 1089456003726 G-X-G motif; other site 1089456003727 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1089456003728 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 1089456003729 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1089456003730 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456003731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456003732 active site 1089456003733 phosphorylation site [posttranslational modification] 1089456003734 intermolecular recognition site; other site 1089456003735 dimerization interface [polypeptide binding]; other site 1089456003736 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1089456003737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1089456003738 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1089456003739 mechanosensitive channel MscS; Provisional; Region: PRK10334 1089456003740 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456003741 AmpG-like permease; Region: 2A0125; TIGR00901 1089456003742 muropeptide transporter; Validated; Region: ampG; cl17669 1089456003743 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 1089456003744 DNA binding site [nucleotide binding] 1089456003745 active site 1089456003746 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1089456003747 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1089456003748 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1089456003749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456003750 NAD(P) binding site [chemical binding]; other site 1089456003751 active site 1089456003752 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1089456003753 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1089456003754 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1089456003755 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1089456003756 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 1089456003757 oligomerisation interface [polypeptide binding]; other site 1089456003758 mobile loop; other site 1089456003759 roof hairpin; other site 1089456003760 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1089456003761 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 1089456003762 ring oligomerisation interface [polypeptide binding]; other site 1089456003763 ATP/Mg binding site [chemical binding]; other site 1089456003764 stacking interactions; other site 1089456003765 hinge regions; other site 1089456003766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 1089456003767 chromosome condensation membrane protein; Provisional; Region: PRK14196 1089456003768 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 1089456003769 active site 1089456003770 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456003771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456003772 active site 1089456003773 phosphorylation site [posttranslational modification] 1089456003774 intermolecular recognition site; other site 1089456003775 dimerization interface [polypeptide binding]; other site 1089456003776 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 1089456003777 DNA binding site [nucleotide binding] 1089456003778 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456003779 HAMP domain; Region: HAMP; pfam00672 1089456003780 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 1089456003781 dimer interface [polypeptide binding]; other site 1089456003782 phosphorylation site [posttranslational modification] 1089456003783 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456003784 ATP binding site [chemical binding]; other site 1089456003785 Mg2+ binding site [ion binding]; other site 1089456003786 G-X-G motif; other site 1089456003787 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 1089456003788 S-adenosylmethionine binding site [chemical binding]; other site 1089456003789 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1089456003790 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1089456003791 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 1089456003792 active site 1089456003793 multidrug efflux protein; Reviewed; Region: PRK09579 1089456003794 Protein export membrane protein; Region: SecD_SecF; cl14618 1089456003795 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456003796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456003797 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456003798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 1089456003799 Imelysin; Region: Peptidase_M75; cl09159 1089456003800 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1089456003801 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1089456003802 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 1089456003803 LemA family; Region: LemA; pfam04011 1089456003804 E3 Ubiquitin ligase; Region: GIDE; pfam12483 1089456003805 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1089456003806 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456003807 metal binding site [ion binding]; metal-binding site 1089456003808 active site 1089456003809 I-site; other site 1089456003810 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 1089456003811 superoxide dismutase; Provisional; Region: PRK10543 1089456003812 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1089456003813 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1089456003814 Lysine efflux permease [General function prediction only]; Region: COG1279 1089456003815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1089456003816 ACT domain; Region: ACT_3; pfam10000 1089456003817 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1089456003818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456003819 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 1089456003820 dimerization interface [polypeptide binding]; other site 1089456003821 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1089456003822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456003823 NAD(P) binding site [chemical binding]; other site 1089456003824 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1089456003825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456003826 NAD(P) binding site [chemical binding]; other site 1089456003827 active site 1089456003828 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1089456003829 oligomer interface [polypeptide binding]; other site 1089456003830 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 1089456003831 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1089456003832 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1089456003833 G1 box; other site 1089456003834 GTP/Mg2+ binding site [chemical binding]; other site 1089456003835 Switch I region; other site 1089456003836 G2 box; other site 1089456003837 G3 box; other site 1089456003838 Switch II region; other site 1089456003839 G4 box; other site 1089456003840 G5 box; other site 1089456003841 Nucleoside recognition; Region: Gate; pfam07670 1089456003842 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1089456003843 Nucleoside recognition; Region: Gate; pfam07670 1089456003844 FeoC like transcriptional regulator; Region: FeoC; cl17677 1089456003845 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456003846 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 1089456003847 FMN binding site [chemical binding]; other site 1089456003848 active site 1089456003849 substrate binding site [chemical binding]; other site 1089456003850 catalytic residue [active] 1089456003851 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1089456003852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456003853 putative substrate translocation pore; other site 1089456003854 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 1089456003855 dimerization interface [polypeptide binding]; other site 1089456003856 putative DNA binding site [nucleotide binding]; other site 1089456003857 putative Zn2+ binding site [ion binding]; other site 1089456003858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3124 1089456003859 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 1089456003860 Ligand Binding Site [chemical binding]; other site 1089456003861 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 1089456003862 Ligand Binding Site [chemical binding]; other site 1089456003863 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1089456003864 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1089456003865 putative acyl-acceptor binding pocket; other site 1089456003866 Putative hemolysin [General function prediction only]; Region: COG3176 1089456003867 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456003868 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456003869 active site 1089456003870 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1089456003871 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456003872 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1089456003873 Beta-lactamase; Region: Beta-lactamase; pfam00144 1089456003874 YceI-like domain; Region: YceI; pfam04264 1089456003875 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1089456003876 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1089456003877 metal binding site [ion binding]; metal-binding site 1089456003878 putative dimer interface [polypeptide binding]; other site 1089456003879 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456003880 metabolite-proton symporter; Region: 2A0106; TIGR00883 1089456003881 putative substrate translocation pore; other site 1089456003882 amidase; Provisional; Region: PRK07486 1089456003883 Amidase; Region: Amidase; pfam01425 1089456003884 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1089456003885 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1089456003886 YceI-like domain; Region: YceI; pfam04264 1089456003887 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1089456003888 PLD-like domain; Region: PLDc_2; pfam13091 1089456003889 putative active site [active] 1089456003890 catalytic site [active] 1089456003891 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1089456003892 PLD-like domain; Region: PLDc_2; pfam13091 1089456003893 putative active site [active] 1089456003894 catalytic site [active] 1089456003895 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1089456003896 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1089456003897 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1089456003898 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1089456003899 conserved cys residue [active] 1089456003900 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1089456003901 manganese transport protein MntH; Reviewed; Region: PRK00701 1089456003902 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1089456003903 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1089456003904 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1089456003905 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456003906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456003907 metal binding site [ion binding]; metal-binding site 1089456003908 active site 1089456003909 I-site; other site 1089456003910 hypothetical protein; Provisional; Region: PRK05713 1089456003911 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 1089456003912 catalytic loop [active] 1089456003913 iron binding site [ion binding]; other site 1089456003914 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 1089456003915 FAD binding pocket [chemical binding]; other site 1089456003916 conserved FAD binding motif [chemical binding]; other site 1089456003917 phosphate binding motif [ion binding]; other site 1089456003918 beta-alpha-beta structure motif; other site 1089456003919 NAD binding pocket [chemical binding]; other site 1089456003920 enoyl-CoA hydratase; Provisional; Region: PRK06688 1089456003921 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 1089456003922 substrate binding site [chemical binding]; other site 1089456003923 oxyanion hole (OAH) forming residues; other site 1089456003924 trimer interface [polypeptide binding]; other site 1089456003925 pyruvate kinase; Provisional; Region: PRK05826 1089456003926 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 1089456003927 domain interfaces; other site 1089456003928 active site 1089456003929 universal stress protein UspE; Provisional; Region: PRK11175 1089456003930 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 1089456003931 Ligand Binding Site [chemical binding]; other site 1089456003932 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 1089456003933 Ligand Binding Site [chemical binding]; other site 1089456003934 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1089456003935 PilZ domain; Region: PilZ; pfam07238 1089456003936 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1089456003937 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 1089456003938 metal ion-dependent adhesion site (MIDAS); other site 1089456003939 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 1089456003940 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1089456003941 Walker A motif; other site 1089456003942 ATP binding site [chemical binding]; other site 1089456003943 Walker B motif; other site 1089456003944 arginine finger; other site 1089456003945 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1089456003946 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 1089456003947 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1089456003948 Protein of unknown function (DUF975); Region: DUF975; cl10504 1089456003949 exonuclease I; Provisional; Region: sbcB; PRK11779 1089456003950 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1089456003951 active site 1089456003952 catalytic site [active] 1089456003953 substrate binding site [chemical binding]; other site 1089456003954 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1089456003955 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1089456003956 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1089456003957 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1089456003958 putative active site [active] 1089456003959 putative substrate binding site [chemical binding]; other site 1089456003960 putative cosubstrate binding site; other site 1089456003961 catalytic site [active] 1089456003962 Predicted integral membrane protein [Function unknown]; Region: COG0392 1089456003963 Predicted deacetylase [General function prediction only]; Region: COG3233 1089456003964 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1089456003965 putative active site [active] 1089456003966 putative Zn binding site [ion binding]; other site 1089456003967 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456003968 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 1089456003969 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 1089456003970 Cache domain; Region: Cache_1; pfam02743 1089456003971 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 1089456003972 dimerization interface [polypeptide binding]; other site 1089456003973 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456003974 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456003975 dimer interface [polypeptide binding]; other site 1089456003976 putative CheW interface [polypeptide binding]; other site 1089456003977 Cache domain; Region: Cache_1; pfam02743 1089456003978 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 1089456003979 dimerization interface [polypeptide binding]; other site 1089456003980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456003981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456003982 dimer interface [polypeptide binding]; other site 1089456003983 putative CheW interface [polypeptide binding]; other site 1089456003984 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1089456003985 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 1089456003986 Cache domain; Region: Cache_1; pfam02743 1089456003987 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 1089456003988 dimerization interface [polypeptide binding]; other site 1089456003989 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456003990 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456003991 dimer interface [polypeptide binding]; other site 1089456003992 putative CheW interface [polypeptide binding]; other site 1089456003993 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1089456003994 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1089456003995 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1089456003996 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1089456003997 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1089456003998 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1089456003999 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1089456004000 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 1089456004001 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1089456004002 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 1089456004003 ATP binding site [chemical binding]; other site 1089456004004 Walker A motif; other site 1089456004005 hexamer interface [polypeptide binding]; other site 1089456004006 Walker B motif; other site 1089456004007 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1089456004008 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456004009 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1089456004010 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456004011 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 1089456004012 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1089456004013 Predicted membrane protein [Function unknown]; Region: COG4655 1089456004014 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456004015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456004016 active site 1089456004017 phosphorylation site [posttranslational modification] 1089456004018 intermolecular recognition site; other site 1089456004019 dimerization interface [polypeptide binding]; other site 1089456004020 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 1089456004021 DNA binding residues [nucleotide binding] 1089456004022 dimerization interface [polypeptide binding]; other site 1089456004023 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1089456004024 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1089456004025 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 1089456004026 PAS fold; Region: PAS_3; pfam08447 1089456004027 putative active site [active] 1089456004028 heme pocket [chemical binding]; other site 1089456004029 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 1089456004030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456004031 putative active site [active] 1089456004032 heme pocket [chemical binding]; other site 1089456004033 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 1089456004034 dimer interface [polypeptide binding]; other site 1089456004035 phosphorylation site [posttranslational modification] 1089456004036 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456004037 ATP binding site [chemical binding]; other site 1089456004038 Mg2+ binding site [ion binding]; other site 1089456004039 G-X-G motif; other site 1089456004040 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1089456004041 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1089456004042 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456004043 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456004044 dimer interface [polypeptide binding]; other site 1089456004045 putative CheW interface [polypeptide binding]; other site 1089456004046 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1089456004047 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1089456004048 Chromate transporter; Region: Chromate_transp; pfam02417 1089456004049 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456004050 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456004051 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004052 EamA-like transporter family; Region: EamA; pfam00892 1089456004053 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1089456004054 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1089456004055 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1089456004056 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 1089456004057 Family description; Region: UvrD_C_2; pfam13538 1089456004058 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1089456004059 AAA domain; Region: AAA_30; pfam13604 1089456004060 Family description; Region: UvrD_C_2; pfam13538 1089456004061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456004062 AAA domain; Region: AAA_23; pfam13476 1089456004063 Walker A/P-loop; other site 1089456004064 ATP binding site [chemical binding]; other site 1089456004065 Q-loop/lid; other site 1089456004066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456004067 ABC transporter signature motif; other site 1089456004068 Walker B; other site 1089456004069 D-loop; other site 1089456004070 H-loop/switch region; other site 1089456004071 exonuclease subunit SbcD; Provisional; Region: PRK10966 1089456004072 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1089456004073 active site 1089456004074 metal binding site [ion binding]; metal-binding site 1089456004075 DNA binding site [nucleotide binding] 1089456004076 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1089456004077 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1089456004078 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1089456004079 putative active site [active] 1089456004080 putative PHP Thumb interface [polypeptide binding]; other site 1089456004081 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 1089456004082 generic binding surface II; other site 1089456004083 generic binding surface I; other site 1089456004084 DNA Polymerase Y-family; Region: PolY_like; cd03468 1089456004085 active site 1089456004086 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1089456004087 DNA binding site [nucleotide binding] 1089456004088 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1089456004089 Cell division inhibitor SulA; Region: SulA; cl01880 1089456004090 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 1089456004091 heme binding pocket [chemical binding]; other site 1089456004092 heme ligand [chemical binding]; other site 1089456004093 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456004094 TonB C terminal; Region: TonB_2; pfam13103 1089456004095 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1089456004096 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 1089456004097 DNA binding residues [nucleotide binding] 1089456004098 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456004099 FecR protein; Region: FecR; pfam04773 1089456004100 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1089456004101 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1089456004102 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1089456004103 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1089456004104 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1089456004105 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1089456004106 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1089456004107 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1089456004108 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1089456004109 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1089456004110 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 1089456004111 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1089456004112 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 1089456004113 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456004114 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456004115 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456004116 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1089456004117 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1089456004118 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1089456004119 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 1089456004120 Walker A motif; other site 1089456004121 ATP binding site [chemical binding]; other site 1089456004122 Walker B motif; other site 1089456004123 type II secretion system protein F; Region: GspF; TIGR02120 1089456004124 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456004125 type II secretion system protein F; Region: GspF; TIGR02120 1089456004126 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456004127 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1089456004128 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1089456004129 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1089456004130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1089456004131 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1089456004132 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1089456004133 Surface antigen; Region: Bac_surface_Ag; pfam01103 1089456004134 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 1089456004135 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1089456004136 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1089456004137 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1089456004138 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1089456004139 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1089456004140 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1089456004141 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1089456004142 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1089456004143 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1089456004144 hypothetical protein; Provisional; Region: PRK10506 1089456004145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456004146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004147 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1089456004148 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1089456004149 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1089456004150 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456004151 metabolite-proton symporter; Region: 2A0106; TIGR00883 1089456004152 putative substrate translocation pore; other site 1089456004153 amidase; Provisional; Region: PRK07042 1089456004154 Amidase; Region: Amidase; pfam01425 1089456004155 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1089456004156 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 1089456004157 active site 1089456004158 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1089456004159 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 1089456004160 trimer interface [polypeptide binding]; other site 1089456004161 active site 1089456004162 substrate binding site [chemical binding]; other site 1089456004163 CoA binding site [chemical binding]; other site 1089456004164 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 1089456004165 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456004166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004167 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 1089456004168 dimerization interface [polypeptide binding]; other site 1089456004169 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1089456004170 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456004171 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1089456004172 dimer interface [polypeptide binding]; other site 1089456004173 active site 1089456004174 metal binding site [ion binding]; metal-binding site 1089456004175 glutathione binding site [chemical binding]; other site 1089456004176 putative acetyltransferase; Provisional; Region: PRK03624 1089456004177 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456004178 Coenzyme A binding pocket [chemical binding]; other site 1089456004179 hypothetical protein; Provisional; Region: PRK13687 1089456004180 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1089456004181 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1089456004182 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 1089456004183 salt bridge; other site 1089456004184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456004185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004186 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 1089456004187 dimerization interface [polypeptide binding]; other site 1089456004188 substrate binding pocket [chemical binding]; other site 1089456004189 Predicted transcriptional regulator [Transcription]; Region: COG2378 1089456004190 WYL domain; Region: WYL; pfam13280 1089456004191 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 1089456004192 putative active site [active] 1089456004193 catalytic site [active] 1089456004194 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1089456004195 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 1089456004196 ATP binding site [chemical binding]; other site 1089456004197 putative Mg++ binding site [ion binding]; other site 1089456004198 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 1089456004199 nucleotide binding region [chemical binding]; other site 1089456004200 ATP-binding site [chemical binding]; other site 1089456004201 Protein of unknown function DUF262; Region: DUF262; pfam03235 1089456004202 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1089456004203 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1089456004204 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 1089456004205 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1089456004206 DNA methylase; Region: N6_N4_Mtase; cl17433 1089456004207 DNA methylase; Region: N6_N4_Mtase; cl17433 1089456004208 DNA methylase; Region: N6_N4_Mtase; pfam01555 1089456004209 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1089456004210 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 1089456004211 ATP binding site [chemical binding]; other site 1089456004212 putative Mg++ binding site [ion binding]; other site 1089456004213 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1089456004214 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 1089456004215 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 1089456004216 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1089456004217 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1089456004218 active site 1089456004219 ATP binding site [chemical binding]; other site 1089456004220 substrate binding site [chemical binding]; other site 1089456004221 activation loop (A-loop); other site 1089456004222 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 1089456004223 AAA domain; Region: AAA_11; pfam13086 1089456004224 Walker A motif; other site 1089456004225 ATP binding site [chemical binding]; other site 1089456004226 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1089456004227 AAA domain; Region: AAA_12; pfam13087 1089456004228 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1089456004229 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 1089456004230 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1089456004231 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 1089456004232 RNA binding site [nucleotide binding]; other site 1089456004233 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1089456004234 Putative helicase; Region: TraI_2; pfam07514 1089456004235 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1089456004236 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1089456004237 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1089456004238 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 1089456004239 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 1089456004240 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1089456004241 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1089456004242 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1089456004243 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1089456004244 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1089456004245 MPN+ (JAMM) motif; other site 1089456004246 Zinc-binding site [ion binding]; other site 1089456004247 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1089456004248 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 1089456004249 catalytic residues [active] 1089456004250 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1089456004251 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1089456004252 ParA/MinD ATPase like; Region: ParA; pfam10609 1089456004253 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1089456004254 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1089456004255 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1089456004256 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1089456004257 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 1089456004258 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1089456004259 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1089456004260 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1089456004261 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1089456004262 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1089456004263 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1089456004264 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1089456004265 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1089456004266 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 1089456004267 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456004268 catalytic residue [active] 1089456004269 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1089456004270 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1089456004271 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1089456004272 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1089456004273 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 1089456004274 nucleotide binding region [chemical binding]; other site 1089456004275 ATP-binding site [chemical binding]; other site 1089456004276 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 1089456004277 S-adenosylmethionine binding site [chemical binding]; other site 1089456004278 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 1089456004279 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1089456004280 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1089456004281 DNA topoisomerase III; Provisional; Region: PRK07726 1089456004282 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1089456004283 active site 1089456004284 putative interdomain interaction site [polypeptide binding]; other site 1089456004285 putative metal-binding site [ion binding]; other site 1089456004286 putative nucleotide binding site [chemical binding]; other site 1089456004287 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 1089456004288 domain I; other site 1089456004289 DNA binding groove [nucleotide binding] 1089456004290 phosphate binding site [ion binding]; other site 1089456004291 domain II; other site 1089456004292 domain III; other site 1089456004293 nucleotide binding site [chemical binding]; other site 1089456004294 catalytic site [active] 1089456004295 domain IV; other site 1089456004296 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1089456004297 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1089456004298 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 1089456004299 ssDNA binding site [nucleotide binding]; other site 1089456004300 dimer interface [polypeptide binding]; other site 1089456004301 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1089456004302 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1089456004303 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1089456004304 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1089456004305 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1089456004306 ParB-like nuclease domain; Region: ParBc; pfam02195 1089456004307 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1089456004308 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 1089456004309 Magnesium ion binding site [ion binding]; other site 1089456004310 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1089456004311 integrase; Provisional; Region: PRK09692 1089456004312 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 1089456004313 active site 1089456004314 Int/Topo IB signature motif; other site 1089456004315 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456004316 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1089456004317 hypothetical protein; Provisional; Region: PRK06132 1089456004318 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1089456004319 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1089456004320 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 1089456004321 RNA binding surface [nucleotide binding]; other site 1089456004322 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1089456004323 active site 1089456004324 uracil binding [chemical binding]; other site 1089456004325 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1089456004326 Predicted membrane protein [Function unknown]; Region: COG3776 1089456004327 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456004328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004329 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 1089456004330 dimerization interface [polypeptide binding]; other site 1089456004331 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1089456004332 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456004333 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1089456004334 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1089456004335 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1089456004336 NAD binding site [chemical binding]; other site 1089456004337 substrate binding site [chemical binding]; other site 1089456004338 putative active site [active] 1089456004339 Ion channel; Region: Ion_trans_2; pfam07885 1089456004340 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1089456004341 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1089456004342 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1089456004343 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 1089456004344 substrate binding site [chemical binding]; other site 1089456004345 oxyanion hole (OAH) forming residues; other site 1089456004346 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1089456004347 enoyl-CoA hydratase; Provisional; Region: PRK09076 1089456004348 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 1089456004349 substrate binding site [chemical binding]; other site 1089456004350 oxyanion hole (OAH) forming residues; other site 1089456004351 trimer interface [polypeptide binding]; other site 1089456004352 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456004353 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1089456004354 substrate binding pocket [chemical binding]; other site 1089456004355 FAD binding site [chemical binding]; other site 1089456004356 catalytic base [active] 1089456004357 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1089456004358 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1089456004359 tetrameric interface [polypeptide binding]; other site 1089456004360 NAD binding site [chemical binding]; other site 1089456004361 catalytic residues [active] 1089456004362 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456004363 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456004364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004366 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 1089456004367 VanW like protein; Region: VanW; pfam04294 1089456004368 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1089456004369 ligand binding site [chemical binding]; other site 1089456004370 active site 1089456004371 UGI interface [polypeptide binding]; other site 1089456004372 catalytic site [active] 1089456004373 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1089456004374 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1089456004375 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1089456004376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1089456004377 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1089456004378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1089456004379 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456004380 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1089456004381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456004382 active site 1089456004383 phosphorylation site [posttranslational modification] 1089456004384 intermolecular recognition site; other site 1089456004385 dimerization interface [polypeptide binding]; other site 1089456004386 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 1089456004387 DNA binding site [nucleotide binding] 1089456004388 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1089456004389 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456004390 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 1089456004391 dimer interface [polypeptide binding]; other site 1089456004392 phosphorylation site [posttranslational modification] 1089456004393 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456004394 ATP binding site [chemical binding]; other site 1089456004395 G-X-G motif; other site 1089456004396 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1089456004397 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1089456004398 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1089456004399 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1089456004400 L-aspartate oxidase; Provisional; Region: PRK09077 1089456004401 L-aspartate oxidase; Provisional; Region: PRK06175 1089456004402 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1089456004403 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1089456004404 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456004405 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 1089456004406 DNA binding residues [nucleotide binding] 1089456004407 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1089456004408 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1089456004409 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1089456004410 MucB/RseB family; Region: MucB_RseB; pfam03888 1089456004411 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1089456004412 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 1089456004413 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1089456004414 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1089456004415 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 1089456004416 protein binding site [polypeptide binding]; other site 1089456004417 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 1089456004418 protein binding site [polypeptide binding]; other site 1089456004419 GTP-binding protein LepA; Provisional; Region: PRK05433 1089456004420 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1089456004421 G1 box; other site 1089456004422 putative GEF interaction site [polypeptide binding]; other site 1089456004423 GTP/Mg2+ binding site [chemical binding]; other site 1089456004424 Switch I region; other site 1089456004425 G2 box; other site 1089456004426 G3 box; other site 1089456004427 Switch II region; other site 1089456004428 G4 box; other site 1089456004429 G5 box; other site 1089456004430 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 1089456004431 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 1089456004432 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1089456004433 signal peptidase I; Provisional; Region: PRK10861 1089456004434 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 1089456004435 Catalytic site [active] 1089456004436 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 1089456004437 ribonuclease III; Reviewed; Region: rnc; PRK00102 1089456004438 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 1089456004439 dimerization interface [polypeptide binding]; other site 1089456004440 active site 1089456004441 metal binding site [ion binding]; metal-binding site 1089456004442 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 1089456004443 dsRNA binding site [nucleotide binding]; other site 1089456004444 GTPase Era; Reviewed; Region: era; PRK00089 1089456004445 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1089456004446 G1 box; other site 1089456004447 GTP/Mg2+ binding site [chemical binding]; other site 1089456004448 Switch I region; other site 1089456004449 G2 box; other site 1089456004450 Switch II region; other site 1089456004451 G3 box; other site 1089456004452 G4 box; other site 1089456004453 G5 box; other site 1089456004454 KH domain; Region: KH_2; pfam07650 1089456004455 Recombination protein O N terminal; Region: RecO_N; pfam11967 1089456004456 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1089456004457 Recombination protein O C terminal; Region: RecO_C; pfam02565 1089456004458 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 1089456004459 active site 1089456004460 hydrophilic channel; other site 1089456004461 dimerization interface [polypeptide binding]; other site 1089456004462 catalytic residues [active] 1089456004463 active site lid [active] 1089456004464 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456004465 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 1089456004466 S-adenosylmethionine binding site [chemical binding]; other site 1089456004467 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456004468 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 1089456004469 S-adenosylmethionine binding site [chemical binding]; other site 1089456004470 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1089456004471 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 1089456004472 membrane-bound complex binding site; other site 1089456004473 hinge residues; other site 1089456004474 Predicted secreted protein [Function unknown]; Region: COG5513 1089456004475 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1089456004476 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 1089456004477 Walker A motif; other site 1089456004478 ATP binding site [chemical binding]; other site 1089456004479 Walker B motif; other site 1089456004480 arginine finger; other site 1089456004481 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1089456004482 Cupin domain; Region: Cupin_2; cl17218 1089456004483 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456004484 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004486 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1089456004487 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 1089456004488 N-terminal plug; other site 1089456004489 ligand-binding site [chemical binding]; other site 1089456004490 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 1089456004491 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1089456004492 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1089456004493 Glutamate binding site [chemical binding]; other site 1089456004494 NAD binding site [chemical binding]; other site 1089456004495 catalytic residues [active] 1089456004496 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1089456004497 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1089456004498 Na binding site [ion binding]; other site 1089456004499 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456004500 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004501 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 1089456004502 dimerization interface [polypeptide binding]; other site 1089456004503 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1089456004504 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456004505 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1089456004506 Predicted ATPase [General function prediction only]; Region: COG4637 1089456004507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456004508 Walker A/P-loop; other site 1089456004509 ATP binding site [chemical binding]; other site 1089456004510 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1089456004511 Transglycosylase; Region: Transgly; cl17702 1089456004512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1089456004513 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456004514 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 1089456004515 S-adenosylmethionine binding site [chemical binding]; other site 1089456004516 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1089456004517 Spore germination protein; Region: Spore_permease; cl17796 1089456004518 Predicted permeases [General function prediction only]; Region: COG0730 1089456004519 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456004520 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456004521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004522 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1089456004523 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1089456004524 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1089456004525 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1089456004526 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1089456004527 substrate binding site [chemical binding]; other site 1089456004528 ligand binding site [chemical binding]; other site 1089456004529 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 1089456004530 substrate binding site [chemical binding]; other site 1089456004531 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1089456004532 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 1089456004533 dimer interface [polypeptide binding]; other site 1089456004534 active site 1089456004535 citrylCoA binding site [chemical binding]; other site 1089456004536 oxalacetate/citrate binding site [chemical binding]; other site 1089456004537 coenzyme A binding site [chemical binding]; other site 1089456004538 catalytic triad [active] 1089456004539 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1089456004540 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 1089456004541 tetramer interface [polypeptide binding]; other site 1089456004542 active site 1089456004543 Mg2+/Mn2+ binding site [ion binding]; other site 1089456004544 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1089456004545 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456004546 DNA-binding site [nucleotide binding]; DNA binding site 1089456004547 FCD domain; Region: FCD; pfam07729 1089456004548 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456004549 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 1089456004550 S-adenosylmethionine binding site [chemical binding]; other site 1089456004551 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1089456004552 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 1089456004553 ATP binding site [chemical binding]; other site 1089456004554 putative Mg++ binding site [ion binding]; other site 1089456004555 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 1089456004556 nucleotide binding region [chemical binding]; other site 1089456004557 ATP-binding site [chemical binding]; other site 1089456004558 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1089456004559 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1089456004560 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1089456004561 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1089456004562 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 1089456004563 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456004564 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 1089456004565 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456004566 active site 1089456004567 catalytic tetrad [active] 1089456004568 Predicted membrane protein [Function unknown]; Region: COG4270 1089456004569 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1089456004570 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 1089456004571 amidase catalytic site [active] 1089456004572 Zn binding residues [ion binding]; other site 1089456004573 substrate binding site [chemical binding]; other site 1089456004574 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 1089456004575 putative hydrophobic ligand binding site [chemical binding]; other site 1089456004576 manganese transport protein MntH; Reviewed; Region: PRK00701 1089456004577 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1089456004578 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1089456004579 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 1089456004580 motif II; other site 1089456004581 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456004582 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456004583 putative substrate translocation pore; other site 1089456004584 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 1089456004585 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1089456004586 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 1089456004587 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456004588 catalytic residue [active] 1089456004589 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 1089456004590 homotrimer interaction site [polypeptide binding]; other site 1089456004591 putative active site [active] 1089456004592 cell density-dependent motility repressor; Provisional; Region: PRK10082 1089456004593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004594 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 1089456004595 dimerization interface [polypeptide binding]; other site 1089456004596 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456004597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004598 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 1089456004599 putative dimerization interface [polypeptide binding]; other site 1089456004600 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 1089456004601 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456004602 putative metal binding site [ion binding]; other site 1089456004603 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 1089456004604 non-specific DNA binding site [nucleotide binding]; other site 1089456004605 salt bridge; other site 1089456004606 sequence-specific DNA binding site [nucleotide binding]; other site 1089456004607 integrase; Provisional; Region: int; PHA02601 1089456004608 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 1089456004609 active site 1089456004610 DNA binding site [nucleotide binding] 1089456004611 Int/Topo IB signature motif; other site 1089456004612 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 1089456004613 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1089456004614 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1089456004615 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1089456004616 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 1089456004617 active site 1089456004618 DNA binding site [nucleotide binding] 1089456004619 Int/Topo IB signature motif; other site 1089456004620 Arc-like DNA binding domain; Region: Arc; pfam03869 1089456004621 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1089456004622 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456004623 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 1089456004624 DNA binding residues [nucleotide binding] 1089456004625 dimerization interface [polypeptide binding]; other site 1089456004626 Predicted transcriptional regulator [Transcription]; Region: COG2932 1089456004627 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 1089456004628 Catalytic site [active] 1089456004629 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1089456004630 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1089456004631 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1089456004632 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 1089456004633 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 1089456004634 Walker A motif; other site 1089456004635 ATP binding site [chemical binding]; other site 1089456004636 Walker B motif; other site 1089456004637 DNA binding loops [nucleotide binding] 1089456004638 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 1089456004639 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1089456004640 ORF11CD3 domain; Region: ORF11CD3; pfam10549 1089456004641 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1089456004642 Predicted chitinase [General function prediction only]; Region: COG3179 1089456004643 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 1089456004644 active site 1089456004645 Phage Terminase; Region: Terminase_1; pfam03354 1089456004646 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1089456004647 Phage portal protein; Region: Phage_portal; pfam04860 1089456004648 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1089456004649 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1089456004650 Phage capsid family; Region: Phage_capsid; pfam05065 1089456004651 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1089456004652 oligomerization interface [polypeptide binding]; other site 1089456004653 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1089456004654 tape measure domain; Region: tape_meas_nterm; TIGR02675 1089456004655 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1089456004656 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1089456004657 Phage-related minor tail protein [Function unknown]; Region: COG5281 1089456004658 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1089456004659 Phage-related protein [Function unknown]; Region: gp18; COG4672 1089456004660 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 1089456004661 MPN+ (JAMM) motif; other site 1089456004662 Zinc-binding site [ion binding]; other site 1089456004663 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1089456004664 NlpC/P60 family; Region: NLPC_P60; cl17555 1089456004665 Phage-related protein, tail component [Function unknown]; Region: COG4723 1089456004666 Phage-related protein, tail component [Function unknown]; Region: COG4733 1089456004667 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1089456004668 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 1089456004669 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1089456004670 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1089456004671 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1089456004672 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456004673 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456004674 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1089456004675 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1089456004676 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1089456004677 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456004678 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456004679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004680 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1089456004681 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456004682 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456004683 ligand binding site [chemical binding]; other site 1089456004684 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1089456004685 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1089456004686 putative acyl-acceptor binding pocket; other site 1089456004687 phosphate acetyltransferase; Reviewed; Region: PRK05632 1089456004688 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 1089456004689 DRTGG domain; Region: DRTGG; pfam07085 1089456004690 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1089456004691 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1089456004692 propionate/acetate kinase; Provisional; Region: PRK12379 1089456004693 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1089456004694 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1089456004695 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1089456004696 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 1089456004697 catalytic residues [active] 1089456004698 dimer interface [polypeptide binding]; other site 1089456004699 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456004700 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456004701 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456004702 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 1089456004703 putative active site [active] 1089456004704 putative FMN binding site [chemical binding]; other site 1089456004705 putative substrate binding site [chemical binding]; other site 1089456004706 putative catalytic residue [active] 1089456004707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1089456004708 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1089456004709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456004710 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 1089456004711 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 1089456004712 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1089456004713 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1089456004714 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1089456004715 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1089456004716 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; pfam04734 1089456004717 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1089456004718 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 1089456004719 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 1089456004720 dimerization interface [polypeptide binding]; other site 1089456004721 PAS domain S-box; Region: sensory_box; TIGR00229 1089456004722 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 1089456004723 putative active site [active] 1089456004724 heme pocket [chemical binding]; other site 1089456004725 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456004726 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456004727 metal binding site [ion binding]; metal-binding site 1089456004728 active site 1089456004729 I-site; other site 1089456004730 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1089456004731 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 1089456004732 dimer interface [polypeptide binding]; other site 1089456004733 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1089456004734 catalytic triad [active] 1089456004735 peroxidatic and resolving cysteines [active] 1089456004736 thioredoxin reductase; Provisional; Region: PRK10262 1089456004737 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456004738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456004739 MAPEG family; Region: MAPEG; pfam01124 1089456004740 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1089456004741 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 1089456004742 tetramer interface [polypeptide binding]; other site 1089456004743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456004744 catalytic residue [active] 1089456004745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 1089456004746 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1089456004747 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1089456004748 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456004749 fumarate hydratase; Provisional; Region: PRK12425 1089456004750 Class II fumarases; Region: Fumarase_classII; cd01362 1089456004751 active site 1089456004752 tetramer interface [polypeptide binding]; other site 1089456004753 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 1089456004754 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1089456004755 BolA-like protein; Region: BolA; cl00386 1089456004756 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1089456004757 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1089456004758 active site residue [active] 1089456004759 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1089456004760 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 1089456004761 catalytic residues [active] 1089456004762 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1089456004763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456004764 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1089456004765 Walker A/P-loop; other site 1089456004766 ATP binding site [chemical binding]; other site 1089456004767 Q-loop/lid; other site 1089456004768 ABC transporter signature motif; other site 1089456004769 Walker B; other site 1089456004770 D-loop; other site 1089456004771 H-loop/switch region; other site 1089456004772 PAS domain S-box; Region: sensory_box; TIGR00229 1089456004773 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 1089456004774 putative active site [active] 1089456004775 heme pocket [chemical binding]; other site 1089456004776 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456004777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456004778 metal binding site [ion binding]; metal-binding site 1089456004779 active site 1089456004780 I-site; other site 1089456004781 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 1089456004782 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 1089456004783 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1089456004784 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1089456004785 putative NAD(P) binding site [chemical binding]; other site 1089456004786 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 1089456004787 Cupin domain; Region: Cupin_2; cl17218 1089456004788 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456004789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004791 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1089456004792 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1089456004793 dimer interface [polypeptide binding]; other site 1089456004794 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1089456004795 active site 1089456004796 Fe binding site [ion binding]; other site 1089456004797 aromatic amino acid transporter; Provisional; Region: PRK10238 1089456004798 lysozyme inhibitor; Provisional; Region: PRK13792 1089456004799 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1089456004800 hypothetical protein; Provisional; Region: PRK09256 1089456004801 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1089456004802 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1089456004803 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1089456004804 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1089456004805 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 1089456004806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456004807 homodimer interface [polypeptide binding]; other site 1089456004808 catalytic residue [active] 1089456004809 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 1089456004810 aromatic arch; other site 1089456004811 DCoH dimer interaction site [polypeptide binding]; other site 1089456004812 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1089456004813 DCoH tetramer interaction site [polypeptide binding]; other site 1089456004814 substrate binding site [chemical binding]; other site 1089456004815 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 1089456004816 cofactor binding site; other site 1089456004817 metal binding site [ion binding]; metal-binding site 1089456004818 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1089456004819 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1089456004820 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 1089456004821 putative active site [active] 1089456004822 heme pocket [chemical binding]; other site 1089456004823 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 1089456004824 Walker A motif; other site 1089456004825 ATP binding site [chemical binding]; other site 1089456004826 Walker B motif; other site 1089456004827 arginine finger; other site 1089456004828 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1089456004829 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1089456004830 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1089456004831 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1089456004832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456004833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004834 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 1089456004835 putative effector binding pocket; other site 1089456004836 dimerization interface [polypeptide binding]; other site 1089456004837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456004838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456004839 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 1089456004840 putative dimerization interface [polypeptide binding]; other site 1089456004841 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1089456004842 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 1089456004843 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 1089456004844 active site 2 [active] 1089456004845 active site 1 [active] 1089456004846 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456004847 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456004848 active site 1089456004849 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 1089456004850 dimer interface [polypeptide binding]; other site 1089456004851 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456004852 metal binding site [ion binding]; metal-binding site 1089456004853 MmgE/PrpD family; Region: MmgE_PrpD; pfam03972 1089456004854 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1089456004855 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1089456004856 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1089456004857 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1089456004858 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1089456004859 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1089456004860 DctM-like transporters; Region: DctM; pfam06808 1089456004861 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1089456004862 acetyl-CoA synthetase; Provisional; Region: PRK00174 1089456004863 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1089456004864 active site 1089456004865 CoA binding site [chemical binding]; other site 1089456004866 acyl-activating enzyme (AAE) consensus motif; other site 1089456004867 AMP binding site [chemical binding]; other site 1089456004868 acetate binding site [chemical binding]; other site 1089456004869 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1089456004870 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 1089456004871 substrate binding pocket [chemical binding]; other site 1089456004872 membrane-bound complex binding site; other site 1089456004873 hinge residues; other site 1089456004874 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456004875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456004876 dimer interface [polypeptide binding]; other site 1089456004877 conserved gate region; other site 1089456004878 putative PBP binding loops; other site 1089456004879 ABC-ATPase subunit interface; other site 1089456004880 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456004881 dimer interface [polypeptide binding]; other site 1089456004882 conserved gate region; other site 1089456004883 putative PBP binding loops; other site 1089456004884 ABC-ATPase subunit interface; other site 1089456004885 Predicted deacylase [General function prediction only]; Region: COG3608 1089456004886 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1089456004887 active site 1089456004888 Zn binding site [ion binding]; other site 1089456004889 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1089456004890 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1089456004891 Walker A/P-loop; other site 1089456004892 ATP binding site [chemical binding]; other site 1089456004893 Q-loop/lid; other site 1089456004894 ABC transporter signature motif; other site 1089456004895 Walker B; other site 1089456004896 D-loop; other site 1089456004897 H-loop/switch region; other site 1089456004898 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1089456004899 conserved cys residue [active] 1089456004900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004901 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456004902 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456004903 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1089456004904 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 1089456004905 inhibitor-cofactor binding pocket; inhibition site 1089456004906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456004907 catalytic residue [active] 1089456004908 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1089456004909 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1089456004910 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1089456004911 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 1089456004912 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1089456004913 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1089456004914 NAD(P) binding site [chemical binding]; other site 1089456004915 catalytic residues [active] 1089456004916 succinylarginine dihydrolase; Provisional; Region: PRK13281 1089456004917 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1089456004918 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1089456004919 putative active site [active] 1089456004920 Zn binding site [ion binding]; other site 1089456004921 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1089456004922 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 1089456004923 tetramer interface [polypeptide binding]; other site 1089456004924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456004925 catalytic residue [active] 1089456004926 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1089456004927 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 1089456004928 motif 1; other site 1089456004929 active site 1089456004930 motif 2; other site 1089456004931 motif 3; other site 1089456004932 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1089456004933 DHHA1 domain; Region: DHHA1; pfam02272 1089456004934 aspartate kinase; Reviewed; Region: PRK06635 1089456004935 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 1089456004936 putative nucleotide binding site [chemical binding]; other site 1089456004937 putative catalytic residues [active] 1089456004938 putative Mg ion binding site [ion binding]; other site 1089456004939 putative aspartate binding site [chemical binding]; other site 1089456004940 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 1089456004941 putative allosteric regulatory site; other site 1089456004942 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 1089456004943 putative allosteric regulatory residue; other site 1089456004944 carbon storage regulator; Provisional; Region: PRK01712 1089456004945 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 1089456004946 non-specific DNA binding site [nucleotide binding]; other site 1089456004947 Predicted transcriptional regulator [Transcription]; Region: COG2932 1089456004948 salt bridge; other site 1089456004949 sequence-specific DNA binding site [nucleotide binding]; other site 1089456004950 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 1089456004951 Catalytic site [active] 1089456004952 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1089456004953 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1089456004954 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1089456004955 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1089456004956 MgtE intracellular N domain; Region: MgtE_N; smart00924 1089456004957 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 1089456004958 Divalent cation transporter; Region: MgtE; pfam01769 1089456004959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1089456004960 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1089456004961 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1089456004962 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1089456004963 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1089456004964 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 1089456004965 FeS/SAM binding site; other site 1089456004966 TRAM domain; Region: TRAM; pfam01938 1089456004967 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1089456004968 potassium uptake protein; Region: kup; TIGR00794 1089456004969 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1089456004970 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1089456004971 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1089456004972 Predicted integral membrane protein [Function unknown]; Region: COG0392 1089456004973 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1089456004974 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1089456004975 Replication protein A C terminal; Region: RPA_C; pfam08784 1089456004976 DNA polymerase IV; Validated; Region: PRK02406 1089456004977 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1089456004978 DNA binding site [nucleotide binding] 1089456004979 active site 1089456004980 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1089456004981 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1089456004982 Sulfatase; Region: Sulfatase; cl17466 1089456004983 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1089456004984 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1089456004985 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1089456004986 putative ligand binding site [chemical binding]; other site 1089456004987 putative NAD binding site [chemical binding]; other site 1089456004988 catalytic site [active] 1089456004989 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1089456004990 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 1089456004991 dimerization interface [polypeptide binding]; other site 1089456004992 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 1089456004993 dimer interface [polypeptide binding]; other site 1089456004994 phosphorylation site [posttranslational modification] 1089456004995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456004996 ATP binding site [chemical binding]; other site 1089456004997 Mg2+ binding site [ion binding]; other site 1089456004998 G-X-G motif; other site 1089456004999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456005000 active site 1089456005001 phosphorylation site [posttranslational modification] 1089456005002 intermolecular recognition site; other site 1089456005003 dimerization interface [polypeptide binding]; other site 1089456005004 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 1089456005005 putative binding surface; other site 1089456005006 active site 1089456005007 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456005008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456005009 active site 1089456005010 phosphorylation site [posttranslational modification] 1089456005011 intermolecular recognition site; other site 1089456005012 dimerization interface [polypeptide binding]; other site 1089456005013 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 1089456005014 DNA binding site [nucleotide binding] 1089456005015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456005016 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 1089456005017 dimerization interface [polypeptide binding]; other site 1089456005018 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 1089456005019 dimer interface [polypeptide binding]; other site 1089456005020 phosphorylation site [posttranslational modification] 1089456005021 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456005022 ATP binding site [chemical binding]; other site 1089456005023 G-X-G motif; other site 1089456005024 outer membrane receptor FepA; Provisional; Region: PRK13528 1089456005025 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 1089456005026 N-terminal plug; other site 1089456005027 ligand-binding site [chemical binding]; other site 1089456005028 cysteine synthase B; Region: cysM; TIGR01138 1089456005029 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 1089456005030 dimer interface [polypeptide binding]; other site 1089456005031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456005032 catalytic residue [active] 1089456005033 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1089456005034 TRAM domain; Region: TRAM; pfam01938 1089456005035 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1089456005036 HD domain; Region: HD_4; pfam13328 1089456005037 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1089456005038 synthetase active site [active] 1089456005039 NTP binding site [chemical binding]; other site 1089456005040 metal binding site [ion binding]; metal-binding site 1089456005041 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 1089456005042 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1089456005043 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1089456005044 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 1089456005045 homodimer interface [polypeptide binding]; other site 1089456005046 metal binding site [ion binding]; metal-binding site 1089456005047 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 1089456005048 homodimer interface [polypeptide binding]; other site 1089456005049 active site 1089456005050 putative chemical substrate binding site [chemical binding]; other site 1089456005051 metal binding site [ion binding]; metal-binding site 1089456005052 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1089456005053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 1089456005054 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1089456005055 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 1089456005056 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 1089456005057 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1089456005058 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1089456005059 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1089456005060 MarR family; Region: MarR_2; cl17246 1089456005061 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1089456005062 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1089456005063 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1089456005064 active site 1089456005065 substrate binding site [chemical binding]; other site 1089456005066 cosubstrate binding site; other site 1089456005067 catalytic site [active] 1089456005068 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1089456005069 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 1089456005070 dimerization interface [polypeptide binding]; other site 1089456005071 putative ATP binding site [chemical binding]; other site 1089456005072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 1089456005073 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1089456005074 DNA replication initiation factor; Validated; Region: PRK05642 1089456005075 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1089456005076 Walker A motif; other site 1089456005077 ATP binding site [chemical binding]; other site 1089456005078 Walker B motif; other site 1089456005079 arginine finger; other site 1089456005080 Predicted membrane protein [Function unknown]; Region: COG3308 1089456005081 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1089456005082 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456005083 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 1089456005084 ArsC family; Region: ArsC; pfam03960 1089456005085 catalytic residues [active] 1089456005086 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1089456005087 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 1089456005088 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1089456005089 catalytic residues [active] 1089456005090 acylphosphatase; Provisional; Region: PRK14442 1089456005091 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1089456005092 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 1089456005093 dimer interface [polypeptide binding]; other site 1089456005094 motif 1; other site 1089456005095 active site 1089456005096 motif 2; other site 1089456005097 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 1089456005098 putative deacylase active site [active] 1089456005099 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 1089456005100 active site 1089456005101 motif 3; other site 1089456005102 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 1089456005103 anticodon binding site; other site 1089456005104 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 1089456005105 CoenzymeA binding site [chemical binding]; other site 1089456005106 subunit interaction site [polypeptide binding]; other site 1089456005107 PHB binding site; other site 1089456005108 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456005109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1089456005110 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1089456005111 Integrase core domain; Region: rve; pfam00665 1089456005112 Integrase core domain; Region: rve; pfam00665 1089456005113 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 1089456005114 putative mercury resistance protein; Provisional; Region: PRK13747 1089456005115 transcriptional regulator MerD; Provisional; Region: PRK13749 1089456005116 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1089456005117 DNA binding residues [nucleotide binding] 1089456005118 putative mercuric reductase; Provisional; Region: PRK13748 1089456005119 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 1089456005120 metal-binding site [ion binding] 1089456005121 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456005122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456005123 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1089456005124 putative mercury transport protein MerC; Provisional; Region: PRK13755 1089456005125 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 1089456005126 metal-binding site [ion binding] 1089456005127 putative mercuric transport protein; Provisional; Region: PRK13751 1089456005128 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1089456005129 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1089456005130 DNA binding residues [nucleotide binding] 1089456005131 dimer interface [polypeptide binding]; other site 1089456005132 mercury binding site [ion binding]; other site 1089456005133 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1089456005134 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 1089456005135 Presynaptic Site I dimer interface [polypeptide binding]; other site 1089456005136 catalytic residues [active] 1089456005137 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1089456005138 Synaptic Flat tetramer interface [polypeptide binding]; other site 1089456005139 Synaptic Site I dimer interface [polypeptide binding]; other site 1089456005140 DNA binding site [nucleotide binding] 1089456005141 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 1089456005142 integrase/recombinase; Provisional; Region: PRK15417 1089456005143 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1089456005144 Int/Topo IB signature motif; other site 1089456005145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456005146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456005147 Coenzyme A binding pocket [chemical binding]; other site 1089456005148 aminoglycoside resistance protein; Provisional; Region: PRK13746 1089456005149 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1089456005150 active site 1089456005151 NTP binding site [chemical binding]; other site 1089456005152 metal binding triad [ion binding]; metal-binding site 1089456005153 antibiotic binding site [chemical binding]; other site 1089456005154 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1089456005155 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 1089456005156 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 1089456005157 dihydropteroate synthase; Region: DHPS; TIGR01496 1089456005158 substrate binding pocket [chemical binding]; other site 1089456005159 dimer interface [polypeptide binding]; other site 1089456005160 inhibitor binding site; inhibition site 1089456005161 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456005162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456005163 Coenzyme A binding pocket [chemical binding]; other site 1089456005164 transposase/IS protein; Provisional; Region: PRK09183 1089456005165 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 1089456005166 Walker A motif; other site 1089456005167 ATP binding site [chemical binding]; other site 1089456005168 Walker B motif; other site 1089456005169 arginine finger; other site 1089456005170 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1089456005171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1089456005172 Integrase core domain; Region: rve; pfam00665 1089456005173 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456005174 HIT domain; Region: HIT; pfam01230 1089456005175 nucleotide binding site/active site [active] 1089456005176 HIT family signature motif; other site 1089456005177 catalytic residue [active] 1089456005178 hypothetical protein; Provisional; Region: PRK00295 1089456005179 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 1089456005180 DNA-binding site [nucleotide binding]; DNA binding site 1089456005181 RNA-binding motif; other site 1089456005182 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1089456005183 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1089456005184 dimerization interface [polypeptide binding]; other site 1089456005185 DPS ferroxidase diiron center [ion binding]; other site 1089456005186 ion pore; other site 1089456005187 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1089456005188 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 1089456005189 dimer interface [polypeptide binding]; other site 1089456005190 anticodon binding site; other site 1089456005191 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 1089456005192 homodimer interface [polypeptide binding]; other site 1089456005193 motif 1; other site 1089456005194 active site 1089456005195 motif 2; other site 1089456005196 GAD domain; Region: GAD; pfam02938 1089456005197 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 1089456005198 active site 1089456005199 motif 3; other site 1089456005200 hypothetical protein; Validated; Region: PRK00110 1089456005201 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 1089456005202 dimer interface [polypeptide binding]; other site 1089456005203 active site 1089456005204 putative DNA-binding cleft [nucleotide binding]; other site 1089456005205 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1089456005206 RuvA N terminal domain; Region: RuvA_N; pfam01330 1089456005207 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1089456005208 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1089456005209 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 1089456005210 Walker A motif; other site 1089456005211 ATP binding site [chemical binding]; other site 1089456005212 Walker B motif; other site 1089456005213 arginine finger; other site 1089456005214 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1089456005215 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 1089456005216 active site 1089456005217 TolQ protein; Region: tolQ; TIGR02796 1089456005218 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1089456005219 TolR protein; Region: tolR; TIGR02801 1089456005220 TolA protein; Region: tolA_full; TIGR02794 1089456005221 TolA protein; Region: tolA_full; TIGR02794 1089456005222 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1089456005223 translocation protein TolB; Provisional; Region: tolB; PRK00178 1089456005224 TolB amino-terminal domain; Region: TolB_N; pfam04052 1089456005225 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1089456005226 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1089456005227 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1089456005228 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456005229 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456005230 ligand binding site [chemical binding]; other site 1089456005231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1089456005232 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 1089456005233 binding surface 1089456005234 TPR motif; other site 1089456005235 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1089456005236 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 1089456005237 FeS/SAM binding site; other site 1089456005238 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 1089456005239 Ligand Binding Site [chemical binding]; other site 1089456005240 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 1089456005241 active site 1089456005242 catalytic residues [active] 1089456005243 DNA binding site [nucleotide binding] 1089456005244 Int/Topo IB signature motif; other site 1089456005245 Putative helicase; Region: TraI_2; pfam07514 1089456005246 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1089456005247 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1089456005248 AAA domain; Region: AAA_30; pfam13604 1089456005249 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1089456005250 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1089456005251 Family description; Region: UvrD_C_2; pfam13538 1089456005252 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1089456005253 Part of AAA domain; Region: AAA_19; pfam13245 1089456005254 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1089456005255 AAA domain; Region: AAA_30; pfam13604 1089456005256 AAA domain; Region: AAA_12; pfam13087 1089456005257 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1089456005258 putative active site [active] 1089456005259 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 1089456005260 Transposase; Region: HTH_Tnp_1; cl17663 1089456005261 Transposase; Region: HTH_Tnp_1; pfam01527 1089456005262 HTH-like domain; Region: HTH_21; pfam13276 1089456005263 Integrase core domain; Region: rve; pfam00665 1089456005264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1089456005265 Integrase core domain; Region: rve_3; pfam13683 1089456005266 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1089456005267 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1089456005268 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1089456005269 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1089456005270 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1089456005271 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 1089456005272 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1089456005273 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1089456005274 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 1089456005275 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1089456005276 catalytic residues [active] 1089456005277 catalytic nucleophile [active] 1089456005278 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1089456005279 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 1089456005280 catalytic residues [active] 1089456005281 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456005282 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1089456005283 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1089456005284 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1089456005285 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1089456005286 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1089456005287 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1089456005288 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1089456005289 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1089456005290 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1089456005291 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1089456005292 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1089456005293 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1089456005294 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1089456005295 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1089456005296 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1089456005297 Family description; Region: UvrD_C_2; pfam13538 1089456005298 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1089456005299 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1089456005300 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1089456005301 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1089456005302 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1089456005303 Transposase domain (DUF772); Region: DUF772; pfam05598 1089456005304 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1089456005305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1089456005306 Integrase core domain; Region: rve_3; pfam13683 1089456005307 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1089456005308 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1089456005309 tetramer interface [polypeptide binding]; other site 1089456005310 heme binding pocket [chemical binding]; other site 1089456005311 NADPH binding site [chemical binding]; other site 1089456005312 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456005313 Epoxide hydrolase N terminus; Region: EHN; pfam06441 1089456005314 Pirin-related protein [General function prediction only]; Region: COG1741 1089456005315 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1089456005316 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456005317 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456005318 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456005319 salicylate hydroxylase; Provisional; Region: PRK08163 1089456005320 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 1089456005321 putative effector binding pocket; other site 1089456005322 dimerization interface [polypeptide binding]; other site 1089456005323 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 1089456005324 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1089456005325 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1089456005326 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456005327 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456005328 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1089456005329 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1089456005330 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1089456005331 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1089456005332 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 1089456005333 putative Mg++ binding site [ion binding]; other site 1089456005334 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 1089456005335 nucleotide binding region [chemical binding]; other site 1089456005336 ATP-binding site [chemical binding]; other site 1089456005337 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1089456005338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1089456005339 Integrase core domain; Region: rve_3; pfam13683 1089456005340 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1089456005341 nucleophile elbow; other site 1089456005342 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 1089456005343 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 1089456005344 nudix motif; other site 1089456005345 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1089456005346 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1089456005347 PapC N-terminal domain; Region: PapC_N; pfam13954 1089456005348 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1089456005349 PapC C-terminal domain; Region: PapC_C; pfam13953 1089456005350 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1089456005351 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1089456005352 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 1089456005353 DNA binding site [nucleotide binding] 1089456005354 active site 1089456005355 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1089456005356 Benzoate CoA ligase (BCL) and similar adenylate forming enzymes; Region: BCL_like; cd05919 1089456005357 dimer interface [polypeptide binding]; other site 1089456005358 acyl-activating enzyme (AAE) consensus motif; other site 1089456005359 putative active site [active] 1089456005360 putative AMP binding site [chemical binding]; other site 1089456005361 putative CoA binding site [chemical binding]; other site 1089456005362 chemical substrate binding site [chemical binding]; other site 1089456005363 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1089456005364 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 1089456005365 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1089456005366 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 1089456005367 active site 1089456005368 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 1089456005369 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 1089456005370 dimer interface [polypeptide binding]; other site 1089456005371 active site 1089456005372 CoA binding pocket [chemical binding]; other site 1089456005373 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456005374 anthranilate synthase component I; Provisional; Region: PRK13564 1089456005375 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1089456005376 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1089456005377 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1089456005378 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1089456005379 glutamine binding [chemical binding]; other site 1089456005380 catalytic triad [active] 1089456005381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456005382 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 1089456005383 quinolinate synthetase; Provisional; Region: PRK09375 1089456005384 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1089456005385 Peptidase family M48; Region: Peptidase_M48; cl12018 1089456005386 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 1089456005387 CPxP motif; other site 1089456005388 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1089456005389 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1089456005390 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1089456005391 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 1089456005392 catalytic triad [active] 1089456005393 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1089456005394 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1089456005395 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1089456005396 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1089456005397 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1089456005398 dimer interface [polypeptide binding]; other site 1089456005399 active site 1089456005400 catalytic residue [active] 1089456005401 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1089456005402 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1089456005403 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1089456005404 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1089456005405 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1089456005406 ATP binding site [chemical binding]; other site 1089456005407 active site 1089456005408 substrate binding site [chemical binding]; other site 1089456005409 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1089456005410 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 1089456005411 active site 1089456005412 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1089456005413 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1089456005414 Bacterial transcriptional regulator; Region: IclR; pfam01614 1089456005415 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1089456005416 DUF35 OB-fold domain; Region: DUF35; pfam01796 1089456005417 thiolase; Provisional; Region: PRK06158 1089456005418 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 1089456005419 active site 1089456005420 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1089456005421 CoA binding domain; Region: CoA_binding_2; pfam13380 1089456005422 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1089456005423 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1089456005424 enoyl-CoA hydratase; Region: PLN02864 1089456005425 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 1089456005426 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 1089456005427 dimer interaction site [polypeptide binding]; other site 1089456005428 substrate-binding tunnel; other site 1089456005429 active site 1089456005430 catalytic site [active] 1089456005431 substrate binding site [chemical binding]; other site 1089456005432 benzoate transport; Region: 2A0115; TIGR00895 1089456005433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456005434 putative substrate translocation pore; other site 1089456005435 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 1089456005436 PHB binding site; other site 1089456005437 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 1089456005438 CoenzymeA binding site [chemical binding]; other site 1089456005439 subunit interaction site [polypeptide binding]; other site 1089456005440 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1089456005441 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456005442 active site 1089456005443 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1089456005444 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 1089456005445 substrate binding site [chemical binding]; other site 1089456005446 oxyanion hole (OAH) forming residues; other site 1089456005447 trimer interface [polypeptide binding]; other site 1089456005448 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1089456005449 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456005450 active site 1089456005451 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1089456005452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456005453 NAD(P) binding site [chemical binding]; other site 1089456005454 active site 1089456005455 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1089456005456 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 1089456005457 FMN binding site [chemical binding]; other site 1089456005458 substrate binding site [chemical binding]; other site 1089456005459 putative catalytic residue [active] 1089456005460 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456005461 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456005462 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 1089456005463 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1089456005464 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1089456005465 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1089456005466 tetrameric interface [polypeptide binding]; other site 1089456005467 NAD binding site [chemical binding]; other site 1089456005468 catalytic residues [active] 1089456005469 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456005470 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456005471 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 1089456005472 salt bridge; other site 1089456005473 sequence-specific DNA binding site [nucleotide binding]; other site 1089456005474 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1089456005475 RES domain; Region: RES; smart00953 1089456005476 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1089456005477 RmuC family; Region: RmuC; pfam02646 1089456005478 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1089456005479 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 1089456005480 active site 1089456005481 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1089456005482 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 1089456005483 C-terminal domain interface [polypeptide binding]; other site 1089456005484 GSH binding site (G-site) [chemical binding]; other site 1089456005485 dimer interface [polypeptide binding]; other site 1089456005486 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1089456005487 N-terminal domain interface [polypeptide binding]; other site 1089456005488 putative dimer interface [polypeptide binding]; other site 1089456005489 active site 1089456005490 SEC-C motif; Region: SEC-C; pfam02810 1089456005491 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 1089456005492 Water Stress and Hypersensitive response; Region: WHy; smart00769 1089456005493 Predicted membrane protein [Function unknown]; Region: COG2860 1089456005494 UPF0126 domain; Region: UPF0126; pfam03458 1089456005495 UPF0126 domain; Region: UPF0126; pfam03458 1089456005496 SEC-C motif; Region: SEC-C; pfam02810 1089456005497 hypothetical protein; Provisional; Region: PRK04233 1089456005498 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456005499 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456005500 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456005501 ligand binding site [chemical binding]; other site 1089456005502 Predicted membrane protein [Function unknown]; Region: COG3776 1089456005503 Predicted integral membrane protein [Function unknown]; Region: COG5615 1089456005504 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1089456005505 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1089456005506 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1089456005507 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1089456005508 Beta-lactamase; Region: Beta-lactamase; pfam00144 1089456005509 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456005510 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456005511 ligand binding site [chemical binding]; other site 1089456005512 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1089456005513 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1089456005514 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1089456005515 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1089456005516 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1089456005517 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1089456005518 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1089456005519 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1089456005520 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1089456005521 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1089456005522 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1089456005523 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1089456005524 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1089456005525 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1089456005526 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1089456005527 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1089456005528 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1089456005529 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1089456005530 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1089456005531 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 1089456005532 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1089456005533 EamA-like transporter family; Region: EamA; pfam00892 1089456005534 EamA-like transporter family; Region: EamA; pfam00892 1089456005535 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1089456005536 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 1089456005537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456005538 catalytic residue [active] 1089456005539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1089456005540 Predicted membrane protein [Function unknown]; Region: COG3650 1089456005541 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1089456005542 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1089456005543 putative NAD(P) binding site [chemical binding]; other site 1089456005544 homodimer interface [polypeptide binding]; other site 1089456005545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456005546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456005547 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 1089456005548 putative effector binding pocket; other site 1089456005549 dimerization interface [polypeptide binding]; other site 1089456005550 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 1089456005551 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1089456005552 ATP binding site [chemical binding]; other site 1089456005553 Mg2+ binding site [ion binding]; other site 1089456005554 G-X-G motif; other site 1089456005555 NMDA receptor-regulated protein 1; Region: NARP1; pfam12569 1089456005556 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 1089456005557 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1089456005558 Walker A/P-loop; other site 1089456005559 ATP binding site [chemical binding]; other site 1089456005560 Q-loop/lid; other site 1089456005561 ABC transporter signature motif; other site 1089456005562 Walker B; other site 1089456005563 D-loop; other site 1089456005564 H-loop/switch region; other site 1089456005565 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1089456005566 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1089456005567 Walker A/P-loop; other site 1089456005568 ATP binding site [chemical binding]; other site 1089456005569 Q-loop/lid; other site 1089456005570 ABC transporter signature motif; other site 1089456005571 Walker B; other site 1089456005572 D-loop; other site 1089456005573 H-loop/switch region; other site 1089456005574 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1089456005575 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1089456005576 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 1089456005577 TM-ABC transporter signature motif; other site 1089456005578 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1089456005579 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 1089456005580 TM-ABC transporter signature motif; other site 1089456005581 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1089456005582 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 1089456005583 dimerization interface [polypeptide binding]; other site 1089456005584 ligand binding site [chemical binding]; other site 1089456005585 Uncharacterized small conserved protein [Function unknown]; Region: COG5626 1089456005586 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1089456005587 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1089456005588 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1089456005589 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1089456005590 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1089456005591 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1089456005592 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1089456005593 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1089456005594 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1089456005595 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1089456005596 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1089456005597 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1089456005598 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1089456005599 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1089456005600 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1089456005601 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1089456005602 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1089456005603 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1089456005604 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1089456005605 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1089456005606 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1089456005607 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1089456005608 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1089456005609 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1089456005610 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1089456005611 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1089456005612 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1089456005613 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1089456005614 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 1089456005615 dimer interface [polypeptide binding]; other site 1089456005616 active site 1089456005617 CoA binding pocket [chemical binding]; other site 1089456005618 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456005619 classical (c) SDRs; Region: SDR_c; cd05233 1089456005620 NAD(P) binding site [chemical binding]; other site 1089456005621 active site 1089456005622 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1089456005623 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1089456005624 putative trimer interface [polypeptide binding]; other site 1089456005625 putative CoA binding site [chemical binding]; other site 1089456005626 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1089456005627 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 1089456005628 [2Fe-2S] cluster binding site [ion binding]; other site 1089456005629 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1089456005630 alpha subunit interface [polypeptide binding]; other site 1089456005631 active site 1089456005632 substrate binding site [chemical binding]; other site 1089456005633 Fe binding site [ion binding]; other site 1089456005634 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1089456005635 putative trimer interface [polypeptide binding]; other site 1089456005636 putative CoA binding site [chemical binding]; other site 1089456005637 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1089456005638 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1089456005639 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1089456005640 active site 1089456005641 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1089456005642 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 1089456005643 active site 1089456005644 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1089456005645 flagellin; Reviewed; Region: PRK08869 1089456005646 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1089456005647 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1089456005648 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1089456005649 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1089456005650 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1089456005651 Flagellar protein FliS; Region: FliS; cl00654 1089456005652 flagellar protein FliS; Validated; Region: fliS; PRK05685 1089456005653 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456005654 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1089456005655 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 1089456005656 Walker A motif; other site 1089456005657 ATP binding site [chemical binding]; other site 1089456005658 Walker B motif; other site 1089456005659 arginine finger; other site 1089456005660 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456005661 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456005662 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 1089456005663 putative active site [active] 1089456005664 heme pocket [chemical binding]; other site 1089456005665 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 1089456005666 dimer interface [polypeptide binding]; other site 1089456005667 phosphorylation site [posttranslational modification] 1089456005668 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456005669 ATP binding site [chemical binding]; other site 1089456005670 Mg2+ binding site [ion binding]; other site 1089456005671 G-X-G motif; other site 1089456005672 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456005673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456005674 active site 1089456005675 phosphorylation site [posttranslational modification] 1089456005676 intermolecular recognition site; other site 1089456005677 dimerization interface [polypeptide binding]; other site 1089456005678 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 1089456005679 Walker A motif; other site 1089456005680 ATP binding site [chemical binding]; other site 1089456005681 Walker B motif; other site 1089456005682 arginine finger; other site 1089456005683 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456005684 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1089456005685 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1089456005686 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1089456005687 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1089456005688 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1089456005689 MgtE intracellular N domain; Region: MgtE_N; smart00924 1089456005690 FliG C-terminal domain; Region: FliG_C; pfam01706 1089456005691 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1089456005692 Flagellar assembly protein FliH; Region: FliH; pfam02108 1089456005693 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1089456005694 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 1089456005695 Walker A motif/ATP binding site; other site 1089456005696 Walker B motif; other site 1089456005697 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1089456005698 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1089456005699 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 1089456005700 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456005701 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456005702 metal binding site [ion binding]; metal-binding site 1089456005703 active site 1089456005704 I-site; other site 1089456005705 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456005706 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456005707 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456005708 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1089456005709 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 1089456005710 RNA binding surface [nucleotide binding]; other site 1089456005711 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 1089456005712 active site 1089456005713 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1089456005714 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1089456005715 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1089456005716 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1089456005717 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1089456005718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456005719 Walker A/P-loop; other site 1089456005720 ATP binding site [chemical binding]; other site 1089456005721 Q-loop/lid; other site 1089456005722 ABC transporter signature motif; other site 1089456005723 Walker B; other site 1089456005724 D-loop; other site 1089456005725 H-loop/switch region; other site 1089456005726 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 1089456005727 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1089456005728 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1089456005729 Sulfatase; Region: Sulfatase; pfam00884 1089456005730 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1089456005731 S1 domain; Region: S1_2; pfam13509 1089456005732 S1 domain; Region: S1_2; pfam13509 1089456005733 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456005734 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456005735 ligand binding site [chemical binding]; other site 1089456005736 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1089456005737 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 1089456005738 dimerization interface [polypeptide binding]; other site 1089456005739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456005740 metal binding site [ion binding]; metal-binding site 1089456005741 active site 1089456005742 I-site; other site 1089456005743 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1089456005744 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 1089456005745 active site 1089456005746 catalytic residues [active] 1089456005747 metal binding site [ion binding]; metal-binding site 1089456005748 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 1089456005749 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1089456005750 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456005751 Zn2+ binding site [ion binding]; other site 1089456005752 Mg2+ binding site [ion binding]; other site 1089456005753 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1089456005754 NAD-dependent deacetylase; Provisional; Region: PRK00481 1089456005755 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 1089456005756 NAD+ binding site [chemical binding]; other site 1089456005757 substrate binding site [chemical binding]; other site 1089456005758 Zn binding site [ion binding]; other site 1089456005759 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 1089456005760 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 1089456005761 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456005762 active site 1089456005763 catalytic tetrad [active] 1089456005764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456005765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456005766 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 1089456005767 putative effector binding pocket; other site 1089456005768 putative dimerization interface [polypeptide binding]; other site 1089456005769 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 1089456005770 dimer interface [polypeptide binding]; other site 1089456005771 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456005772 Mn binding site [ion binding]; other site 1089456005773 K binding site [ion binding]; other site 1089456005774 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1089456005775 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1089456005776 Ligand binding site; other site 1089456005777 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456005778 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456005779 Protein of unknown function, DUF393; Region: DUF393; cl01136 1089456005780 chaperone protein HchA; Provisional; Region: PRK04155 1089456005781 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1089456005782 conserved cys residue [active] 1089456005783 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 1089456005784 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1089456005785 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 1089456005786 DNA binding residues [nucleotide binding] 1089456005787 dimerization interface [polypeptide binding]; other site 1089456005788 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1089456005789 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1089456005790 NAD(P) binding site [chemical binding]; other site 1089456005791 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456005792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456005793 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1089456005794 dimerization interface [polypeptide binding]; other site 1089456005795 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1089456005796 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 1089456005797 hypothetical protein; Provisional; Region: PRK11171 1089456005798 Cupin domain; Region: Cupin_2; pfam07883 1089456005799 Cupin domain; Region: Cupin_2; pfam07883 1089456005800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456005801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456005802 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1089456005803 dimerization interface [polypeptide binding]; other site 1089456005804 transcriptional regulator protein; Region: phnR; TIGR03337 1089456005805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456005806 DNA-binding site [nucleotide binding]; DNA binding site 1089456005807 UTRA domain; Region: UTRA; pfam07702 1089456005808 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1089456005809 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1089456005810 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1089456005811 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456005812 putative substrate translocation pore; other site 1089456005813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456005814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456005815 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 1089456005816 dimerization interface [polypeptide binding]; other site 1089456005817 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1089456005818 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1089456005819 putative active site [active] 1089456005820 metal binding site [ion binding]; metal-binding site 1089456005821 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 1089456005822 Exotoxin A binding; Region: Exotox-A_bind; pfam09101 1089456005823 Exotoxin A, targeting; Region: Exotox-A_target; pfam09102 1089456005824 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 1089456005825 nad+ binding pocket [chemical binding]; other site 1089456005826 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 1089456005827 S-type Pyocin; Region: Pyocin_S; pfam06958 1089456005828 Prophage antirepressor [Transcription]; Region: COG3617 1089456005829 BRO family, N-terminal domain; Region: Bro-N; cl10591 1089456005830 HTH-like domain; Region: HTH_21; pfam13276 1089456005831 Integrase core domain; Region: rve; pfam00665 1089456005832 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1089456005833 Integrase core domain; Region: rve_3; pfam13683 1089456005834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1089456005835 Transposase; Region: HTH_Tnp_1; pfam01527 1089456005836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1089456005837 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1089456005838 dimer interface [polypeptide binding]; other site 1089456005839 putative radical transfer pathway; other site 1089456005840 diiron center [ion binding]; other site 1089456005841 tyrosyl radical; other site 1089456005842 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1089456005843 ATP cone domain; Region: ATP-cone; pfam03477 1089456005844 ATP cone domain; Region: ATP-cone; pfam03477 1089456005845 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1089456005846 active site 1089456005847 dimer interface [polypeptide binding]; other site 1089456005848 catalytic residues [active] 1089456005849 effector binding site; other site 1089456005850 R2 peptide binding site; other site 1089456005851 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1089456005852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456005853 active site 1089456005854 phosphorylation site [posttranslational modification] 1089456005855 intermolecular recognition site; other site 1089456005856 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 1089456005857 DNA binding site [nucleotide binding] 1089456005858 sensor protein RstB; Provisional; Region: PRK10604 1089456005859 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 1089456005860 dimerization interface [polypeptide binding]; other site 1089456005861 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 1089456005862 dimer interface [polypeptide binding]; other site 1089456005863 phosphorylation site [posttranslational modification] 1089456005864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456005865 ATP binding site [chemical binding]; other site 1089456005866 Mg2+ binding site [ion binding]; other site 1089456005867 G-X-G motif; other site 1089456005868 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 1089456005869 DNA-binding site [nucleotide binding]; DNA binding site 1089456005870 RNA-binding motif; other site 1089456005871 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1089456005872 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1089456005873 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1089456005874 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1089456005875 metal binding site [ion binding]; metal-binding site 1089456005876 dimer interface [polypeptide binding]; other site 1089456005877 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1089456005878 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1089456005879 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 1089456005880 active site 1089456005881 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1089456005882 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 1089456005883 putative ATP binding site [chemical binding]; other site 1089456005884 putative substrate interface [chemical binding]; other site 1089456005885 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1089456005886 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1089456005887 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1089456005888 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456005889 Alginate lyase; Region: Alginate_lyase2; pfam08787 1089456005890 Lipoxygenase; Region: Lipoxygenase; pfam00305 1089456005891 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1089456005892 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1089456005893 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 1089456005894 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456005895 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1089456005896 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1089456005897 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1089456005898 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1089456005899 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1089456005900 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1089456005901 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 1089456005902 [4Fe-4S] binding site [ion binding]; other site 1089456005903 molybdopterin cofactor binding site; other site 1089456005904 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 1089456005905 molybdopterin cofactor binding site; other site 1089456005906 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 1089456005907 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1089456005908 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1089456005909 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1089456005910 Periplasmic nitrate reductase system, NapE component [Energy production and conversion]; Region: NapE; COG4459 1089456005911 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1089456005912 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1089456005913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456005914 active site 1089456005915 phosphorylation site [posttranslational modification] 1089456005916 intermolecular recognition site; other site 1089456005917 dimerization interface [polypeptide binding]; other site 1089456005918 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 1089456005919 DNA binding site [nucleotide binding] 1089456005920 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 1089456005921 dimer interface [polypeptide binding]; other site 1089456005922 phosphorylation site [posttranslational modification] 1089456005923 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456005924 ATP binding site [chemical binding]; other site 1089456005925 G-X-G motif; other site 1089456005926 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 1089456005927 putative diguanylate cyclase; Provisional; Region: PRK09776 1089456005928 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 1089456005929 putative active site [active] 1089456005930 heme pocket [chemical binding]; other site 1089456005931 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 1089456005932 putative active site [active] 1089456005933 heme pocket [chemical binding]; other site 1089456005934 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 1089456005935 putative active site [active] 1089456005936 heme pocket [chemical binding]; other site 1089456005937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456005938 metal binding site [ion binding]; metal-binding site 1089456005939 active site 1089456005940 I-site; other site 1089456005941 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 1089456005942 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456005943 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456005944 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456005945 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1089456005946 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1089456005947 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456005948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456005949 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 1089456005950 dimerization interface [polypeptide binding]; other site 1089456005951 substrate binding pocket [chemical binding]; other site 1089456005952 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456005953 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 1089456005954 C-terminal domain interface [polypeptide binding]; other site 1089456005955 GSH binding site (G-site) [chemical binding]; other site 1089456005956 dimer interface [polypeptide binding]; other site 1089456005957 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1089456005958 dimer interface [polypeptide binding]; other site 1089456005959 N-terminal domain interface [polypeptide binding]; other site 1089456005960 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1089456005961 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1089456005962 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456005963 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456005964 active site 1089456005965 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1089456005966 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1089456005967 hypothetical protein; Provisional; Region: PRK04860 1089456005968 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1089456005969 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1089456005970 DNA-J related protein; Region: DNAJ_related; pfam12339 1089456005971 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 1089456005972 HSP70 interaction site [polypeptide binding]; other site 1089456005973 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1089456005974 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 1089456005975 Ligand Binding Site [chemical binding]; other site 1089456005976 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 1089456005977 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1089456005978 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1089456005979 Amidinotransferase; Region: Amidinotransf; cl12043 1089456005980 photoactive yellow protein; Region: photo_yellow; TIGR02373 1089456005981 PAS domain; Region: PAS_9; pfam13426 1089456005982 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1089456005983 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 1089456005984 Walker A motif; other site 1089456005985 ATP binding site [chemical binding]; other site 1089456005986 Walker B motif; other site 1089456005987 arginine finger; other site 1089456005988 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1089456005989 NAD-dependent deacetylase; Provisional; Region: PRK00481 1089456005990 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 1089456005991 NAD+ binding site [chemical binding]; other site 1089456005992 substrate binding site [chemical binding]; other site 1089456005993 Zn binding site [ion binding]; other site 1089456005994 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1089456005995 NlpC/P60 family; Region: NLPC_P60; pfam00877 1089456005996 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1089456005997 NlpC/P60 family; Region: NLPC_P60; pfam00877 1089456005998 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1089456005999 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 1089456006000 S-adenosylmethionine binding site [chemical binding]; other site 1089456006001 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456006002 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006003 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 1089456006004 putative effector binding pocket; other site 1089456006005 dimerization interface [polypeptide binding]; other site 1089456006006 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456006007 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 1089456006008 catalytic triad [active] 1089456006009 dimer interface [polypeptide binding]; other site 1089456006010 conserved cis-peptide bond; other site 1089456006011 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1089456006012 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456006013 Predicted flavoprotein [General function prediction only]; Region: COG0431 1089456006014 Pirin-related protein [General function prediction only]; Region: COG1741 1089456006015 Pirin; Region: Pirin; pfam02678 1089456006016 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1089456006017 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 1089456006018 putative hydrophobic ligand binding site [chemical binding]; other site 1089456006019 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1089456006020 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1089456006021 TrkA-N domain; Region: TrkA_N; pfam02254 1089456006022 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1089456006023 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1089456006024 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1089456006025 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 1089456006026 active site residue [active] 1089456006027 Pirin-related protein [General function prediction only]; Region: COG1741 1089456006028 Pirin; Region: Pirin; pfam02678 1089456006029 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1089456006030 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456006031 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 1089456006032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006033 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456006034 putative substrate translocation pore; other site 1089456006035 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 1089456006036 substrate binding pocket [chemical binding]; other site 1089456006037 active site 1089456006038 iron coordination sites [ion binding]; other site 1089456006039 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1089456006040 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 1089456006041 active site 1089456006042 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 1089456006043 Ligand Binding Site [chemical binding]; other site 1089456006044 Molecular Tunnel; other site 1089456006045 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1089456006046 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 1089456006047 acyl-activating enzyme (AAE) consensus motif; other site 1089456006048 AMP binding site [chemical binding]; other site 1089456006049 active site 1089456006050 CoA binding site [chemical binding]; other site 1089456006051 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 1089456006052 S-adenosylmethionine binding site [chemical binding]; other site 1089456006053 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1089456006054 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1089456006055 active site 1089456006056 catalytic residues [active] 1089456006057 metal binding site [ion binding]; metal-binding site 1089456006058 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1089456006059 Thioesterase domain; Region: Thioesterase; pfam00975 1089456006060 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 1089456006061 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1089456006062 acyl-activating enzyme (AAE) consensus motif; other site 1089456006063 AMP binding site [chemical binding]; other site 1089456006064 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1089456006065 MltA specific insert domain; Region: MltA; pfam03562 1089456006066 3D domain; Region: 3D; pfam06725 1089456006067 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456006068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006069 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 1089456006070 dimerization interface [polypeptide binding]; other site 1089456006071 substrate binding pocket [chemical binding]; other site 1089456006072 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1089456006073 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1089456006074 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1089456006075 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1089456006076 putative active site; other site 1089456006077 catalytic triad [active] 1089456006078 putative dimer interface [polypeptide binding]; other site 1089456006079 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1089456006080 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456006081 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1089456006082 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1089456006083 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1089456006084 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456006085 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006086 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006087 Phosphotransferase enzyme family; Region: APH; pfam01636 1089456006088 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456006089 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1089456006090 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456006091 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456006092 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1089456006093 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1089456006094 Cupin domain; Region: Cupin_2; pfam07883 1089456006095 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456006096 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456006097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456006098 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456006099 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006100 putative substrate translocation pore; other site 1089456006101 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006102 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1089456006103 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456006104 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456006105 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1089456006106 enoyl-CoA hydratase; Provisional; Region: PRK06563 1089456006107 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 1089456006108 substrate binding site [chemical binding]; other site 1089456006109 oxyanion hole (OAH) forming residues; other site 1089456006110 trimer interface [polypeptide binding]; other site 1089456006111 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006112 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006113 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1089456006114 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1089456006115 active site 1089456006116 catalytic residues [active] 1089456006117 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1089456006118 GAF domain; Region: GAF; pfam01590 1089456006119 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 1089456006120 PAS domain; Region: PAS_9; pfam13426 1089456006121 putative active site [active] 1089456006122 heme pocket [chemical binding]; other site 1089456006123 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456006124 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 1089456006125 dimer interface [polypeptide binding]; other site 1089456006126 phosphorylation site [posttranslational modification] 1089456006127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456006128 ATP binding site [chemical binding]; other site 1089456006129 Mg2+ binding site [ion binding]; other site 1089456006130 G-X-G motif; other site 1089456006131 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456006132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456006133 active site 1089456006134 phosphorylation site [posttranslational modification] 1089456006135 intermolecular recognition site; other site 1089456006136 dimerization interface [polypeptide binding]; other site 1089456006137 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1089456006138 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1089456006139 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456006140 Walker A/P-loop; other site 1089456006141 ATP binding site [chemical binding]; other site 1089456006142 Q-loop/lid; other site 1089456006143 ABC transporter signature motif; other site 1089456006144 Walker B; other site 1089456006145 D-loop; other site 1089456006146 H-loop/switch region; other site 1089456006147 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1089456006148 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456006149 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456006150 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1089456006151 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 1089456006152 active site 1089456006153 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1089456006154 Protease inhibitor Inh; Region: Inh; pfam02974 1089456006155 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1089456006156 HAMP domain; Region: HAMP; pfam00672 1089456006157 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456006158 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456006159 dimer interface [polypeptide binding]; other site 1089456006160 putative CheW interface [polypeptide binding]; other site 1089456006161 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1089456006162 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1089456006163 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1089456006164 dimer interface [polypeptide binding]; other site 1089456006165 NADP binding site [chemical binding]; other site 1089456006166 catalytic residues [active] 1089456006167 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1089456006168 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1089456006169 inhibitor site; inhibition site 1089456006170 active site 1089456006171 dimer interface [polypeptide binding]; other site 1089456006172 catalytic residue [active] 1089456006173 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1089456006174 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1089456006175 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1089456006176 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1089456006177 Walker A/P-loop; other site 1089456006178 ATP binding site [chemical binding]; other site 1089456006179 Q-loop/lid; other site 1089456006180 ABC transporter signature motif; other site 1089456006181 Walker B; other site 1089456006182 D-loop; other site 1089456006183 H-loop/switch region; other site 1089456006184 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456006185 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456006186 dimer interface [polypeptide binding]; other site 1089456006187 conserved gate region; other site 1089456006188 putative PBP binding loops; other site 1089456006189 ABC-ATPase subunit interface; other site 1089456006190 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456006191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456006192 dimer interface [polypeptide binding]; other site 1089456006193 conserved gate region; other site 1089456006194 putative PBP binding loops; other site 1089456006195 ABC-ATPase subunit interface; other site 1089456006196 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 1089456006197 substrate binding site [chemical binding]; other site 1089456006198 Protein of unknown function (DUF521); Region: DUF521; pfam04412 1089456006199 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 1089456006200 substrate binding site [chemical binding]; other site 1089456006201 ligand binding site [chemical binding]; other site 1089456006202 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456006203 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 1089456006204 substrate binding pocket [chemical binding]; other site 1089456006205 membrane-bound complex binding site; other site 1089456006206 hinge residues; other site 1089456006207 PAS fold; Region: PAS_4; pfam08448 1089456006208 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 1089456006209 putative active site [active] 1089456006210 heme pocket [chemical binding]; other site 1089456006211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456006212 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456006213 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456006214 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006215 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1089456006216 putative substrate translocation pore; other site 1089456006217 Helix-turn-helix domain; Region: HTH_31; pfam13560 1089456006218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456006219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006220 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 1089456006221 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1089456006222 EamA-like transporter family; Region: EamA; pfam00892 1089456006223 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1089456006224 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1089456006225 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456006226 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1089456006227 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1089456006228 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1089456006229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456006230 DNA-binding site [nucleotide binding]; DNA binding site 1089456006231 FCD domain; Region: FCD; pfam07729 1089456006232 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1089456006233 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1089456006234 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 1089456006235 N-terminal plug; other site 1089456006236 ligand-binding site [chemical binding]; other site 1089456006237 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1089456006238 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1089456006239 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 1089456006240 homodimer interface [polypeptide binding]; other site 1089456006241 Walker A motif; other site 1089456006242 ATP binding site [chemical binding]; other site 1089456006243 hydroxycobalamin binding site [chemical binding]; other site 1089456006244 Walker B motif; other site 1089456006245 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1089456006246 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 1089456006247 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1089456006248 catalytic triad [active] 1089456006249 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 1089456006250 FMN binding site [chemical binding]; other site 1089456006251 dimer interface [polypeptide binding]; other site 1089456006252 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1089456006253 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 1089456006254 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1089456006255 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456006256 catalytic residue [active] 1089456006257 cobyric acid synthase; Provisional; Region: PRK00784 1089456006258 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1089456006259 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1089456006260 catalytic triad [active] 1089456006261 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 1089456006262 homotrimer interface [polypeptide binding]; other site 1089456006263 Walker A motif; other site 1089456006264 GTP binding site [chemical binding]; other site 1089456006265 Walker B motif; other site 1089456006266 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1089456006267 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1089456006268 putative dimer interface [polypeptide binding]; other site 1089456006269 active site pocket [active] 1089456006270 putative cataytic base [active] 1089456006271 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 1089456006272 catalytic core [active] 1089456006273 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1089456006274 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1089456006275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006276 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006277 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006278 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1089456006279 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1089456006280 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456006281 active site 1089456006282 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1089456006283 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1089456006284 MarR family; Region: MarR_2; pfam12802 1089456006285 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456006286 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006287 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 1089456006288 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1089456006289 catalytic residues [active] 1089456006290 dimer interface [polypeptide binding]; other site 1089456006291 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1089456006292 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006293 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006294 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1089456006295 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1089456006296 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 1089456006297 active site residue [active] 1089456006298 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 1089456006299 active site residue [active] 1089456006300 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1089456006301 Strictosidine synthase; Region: Str_synth; pfam03088 1089456006302 ribonuclease D; Region: rnd; TIGR01388 1089456006303 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1089456006304 catalytic site [active] 1089456006305 putative active site [active] 1089456006306 putative substrate binding site [chemical binding]; other site 1089456006307 HRDC domain; Region: HRDC; pfam00570 1089456006308 YcgL domain; Region: YcgL; pfam05166 1089456006309 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1089456006310 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1089456006311 NAD binding site [chemical binding]; other site 1089456006312 ligand binding site [chemical binding]; other site 1089456006313 catalytic site [active] 1089456006314 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1089456006315 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1089456006316 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1089456006317 putative metal binding site [ion binding]; other site 1089456006318 putative homodimer interface [polypeptide binding]; other site 1089456006319 putative homotetramer interface [polypeptide binding]; other site 1089456006320 putative homodimer-homodimer interface [polypeptide binding]; other site 1089456006321 putative allosteric switch controlling residues; other site 1089456006322 hypothetical protein; Provisional; Region: PRK05170 1089456006323 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1089456006324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456006325 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1089456006326 DNA binding residues [nucleotide binding] 1089456006327 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456006328 FecR protein; Region: FecR; pfam04773 1089456006329 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456006330 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1089456006331 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 1089456006332 N-terminal plug; other site 1089456006333 ligand-binding site [chemical binding]; other site 1089456006334 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1089456006335 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 1089456006336 Catalytic site [active] 1089456006337 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1089456006338 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456006339 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1089456006340 nucleotide binding site/active site [active] 1089456006341 HIT family signature motif; other site 1089456006342 catalytic residue [active] 1089456006343 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1089456006344 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 1089456006345 putative active site [active] 1089456006346 putative dimer interface [polypeptide binding]; other site 1089456006347 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1089456006348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006349 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1089456006350 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 1089456006351 dimerization interface [polypeptide binding]; other site 1089456006352 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1089456006353 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456006354 catalytic residue [active] 1089456006355 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1089456006356 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 1089456006357 motif II; other site 1089456006358 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456006359 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006360 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 1089456006361 putative effector binding pocket; other site 1089456006362 dimerization interface [polypeptide binding]; other site 1089456006363 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006364 putative substrate translocation pore; other site 1089456006365 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1089456006367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006368 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006369 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1089456006370 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456006371 putative substrate translocation pore; other site 1089456006372 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1089456006373 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1089456006374 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1089456006375 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1089456006376 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 1089456006377 D-pathway; other site 1089456006378 Putative ubiquinol binding site [chemical binding]; other site 1089456006379 Low-spin heme (heme b) binding site [chemical binding]; other site 1089456006380 Putative water exit pathway; other site 1089456006381 Binuclear center (heme o3/CuB) [ion binding]; other site 1089456006382 K-pathway; other site 1089456006383 Putative proton exit pathway; other site 1089456006384 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 1089456006385 Subunit I/III interface [polypeptide binding]; other site 1089456006386 Subunit III/IV interface [polypeptide binding]; other site 1089456006387 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1089456006388 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1089456006389 UbiA prenyltransferase family; Region: UbiA; pfam01040 1089456006390 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1089456006391 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 1089456006392 N-terminal plug; other site 1089456006393 ligand-binding site [chemical binding]; other site 1089456006394 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1089456006395 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1089456006396 threonine dehydratase; Reviewed; Region: PRK09224 1089456006397 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 1089456006398 tetramer interface [polypeptide binding]; other site 1089456006399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456006400 catalytic residue [active] 1089456006401 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1089456006402 putative Ile/Val binding site [chemical binding]; other site 1089456006403 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1089456006404 putative Ile/Val binding site [chemical binding]; other site 1089456006405 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1089456006406 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 1089456006407 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1089456006408 active site 1089456006409 substrate binding site [chemical binding]; other site 1089456006410 Mg2+ binding site [ion binding]; other site 1089456006411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456006412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006413 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 1089456006414 putative effector binding pocket; other site 1089456006415 putative dimerization interface [polypeptide binding]; other site 1089456006416 Domain of unknown function (DUF336); Region: DUF336; cl01249 1089456006417 short chain dehydrogenase; Provisional; Region: PRK09291 1089456006418 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1089456006419 NADP binding site [chemical binding]; other site 1089456006420 active site 1089456006421 steroid binding site; other site 1089456006422 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1089456006423 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1089456006424 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 1089456006425 Transporter associated domain; Region: CorC_HlyC; smart01091 1089456006426 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 1089456006427 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456006428 FMN binding site [chemical binding]; other site 1089456006429 active site 1089456006430 substrate binding site [chemical binding]; other site 1089456006431 catalytic residue [active] 1089456006432 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456006433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456006434 active site 1089456006435 phosphorylation site [posttranslational modification] 1089456006436 intermolecular recognition site; other site 1089456006437 dimerization interface [polypeptide binding]; other site 1089456006438 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 1089456006439 Walker A motif; other site 1089456006440 ATP binding site [chemical binding]; other site 1089456006441 Walker B motif; other site 1089456006442 arginine finger; other site 1089456006443 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456006444 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1089456006445 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 1089456006446 dimer interface [polypeptide binding]; other site 1089456006447 phosphorylation site [posttranslational modification] 1089456006448 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456006449 ATP binding site [chemical binding]; other site 1089456006450 Mg2+ binding site [ion binding]; other site 1089456006451 G-X-G motif; other site 1089456006452 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1089456006453 homodimer interface [polypeptide binding]; other site 1089456006454 active site 1089456006455 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1089456006456 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1089456006457 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1089456006458 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1089456006459 Walker A/P-loop; other site 1089456006460 ATP binding site [chemical binding]; other site 1089456006461 Q-loop/lid; other site 1089456006462 ABC transporter signature motif; other site 1089456006463 Walker B; other site 1089456006464 D-loop; other site 1089456006465 H-loop/switch region; other site 1089456006466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456006467 dimer interface [polypeptide binding]; other site 1089456006468 conserved gate region; other site 1089456006469 putative PBP binding loops; other site 1089456006470 ABC-ATPase subunit interface; other site 1089456006471 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456006472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456006473 dimer interface [polypeptide binding]; other site 1089456006474 conserved gate region; other site 1089456006475 putative PBP binding loops; other site 1089456006476 ABC-ATPase subunit interface; other site 1089456006477 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1089456006478 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 1089456006479 substrate binding pocket [chemical binding]; other site 1089456006480 membrane-bound complex binding site; other site 1089456006481 hinge residues; other site 1089456006482 short chain dehydrogenase; Provisional; Region: PRK06523 1089456006483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456006484 NAD(P) binding site [chemical binding]; other site 1089456006485 active site 1089456006486 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1089456006487 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1089456006488 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456006489 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1089456006490 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1089456006491 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1089456006492 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456006493 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 1089456006494 DNA binding residues [nucleotide binding] 1089456006495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1089456006496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 1089456006497 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1089456006498 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456006499 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1089456006500 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456006501 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 1089456006502 dimer interface [polypeptide binding]; other site 1089456006503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1089456006504 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 1089456006505 putative deacylase active site [active] 1089456006506 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 1089456006507 dimer interface [polypeptide binding]; other site 1089456006508 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 1089456006509 non-specific DNA binding site [nucleotide binding]; other site 1089456006510 salt bridge; other site 1089456006511 sequence-specific DNA binding site [nucleotide binding]; other site 1089456006512 Cupin domain; Region: Cupin_2; pfam07883 1089456006513 threonine and homoserine efflux system; Provisional; Region: PRK10532 1089456006514 multidrug efflux protein; Reviewed; Region: PRK01766 1089456006515 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1089456006516 cation binding site [ion binding]; other site 1089456006517 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1089456006518 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 1089456006519 DNA binding residues [nucleotide binding] 1089456006520 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456006521 FecR protein; Region: FecR; pfam04773 1089456006522 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456006523 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1089456006524 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 1089456006525 N-terminal plug; other site 1089456006526 ligand-binding site [chemical binding]; other site 1089456006527 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1089456006528 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006529 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006530 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1089456006531 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1089456006532 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456006533 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1089456006534 short chain dehydrogenase; Provisional; Region: PRK06179 1089456006535 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1089456006536 NADP binding site [chemical binding]; other site 1089456006537 active site 1089456006538 steroid binding site; other site 1089456006539 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1089456006540 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456006541 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456006542 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456006543 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006544 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006545 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456006546 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 1089456006547 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 1089456006548 dimer interface [polypeptide binding]; other site 1089456006549 active site 1089456006550 Predicted transcriptional regulators [Transcription]; Region: COG1733 1089456006551 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1089456006552 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1089456006553 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1089456006554 ligand binding site [chemical binding]; other site 1089456006555 NAD binding site [chemical binding]; other site 1089456006556 catalytic site [active] 1089456006557 homodimer interface [polypeptide binding]; other site 1089456006558 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1089456006559 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1089456006560 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1089456006561 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456006562 Coenzyme A binding pocket [chemical binding]; other site 1089456006563 short chain dehydrogenase; Provisional; Region: PRK06180 1089456006564 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1089456006565 NADP binding site [chemical binding]; other site 1089456006566 active site 1089456006567 steroid binding site; other site 1089456006568 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1089456006569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456006570 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456006571 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456006572 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 1089456006573 dimer interface [polypeptide binding]; other site 1089456006574 phosphorylation site [posttranslational modification] 1089456006575 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1089456006576 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456006577 ATP binding site [chemical binding]; other site 1089456006578 Mg2+ binding site [ion binding]; other site 1089456006579 G-X-G motif; other site 1089456006580 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456006581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456006582 active site 1089456006583 phosphorylation site [posttranslational modification] 1089456006584 intermolecular recognition site; other site 1089456006585 dimerization interface [polypeptide binding]; other site 1089456006586 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456006587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456006588 active site 1089456006589 phosphorylation site [posttranslational modification] 1089456006590 intermolecular recognition site; other site 1089456006591 dimerization interface [polypeptide binding]; other site 1089456006592 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 1089456006593 DNA binding residues [nucleotide binding] 1089456006594 dimerization interface [polypeptide binding]; other site 1089456006595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456006596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006597 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 1089456006598 substrate binding pocket [chemical binding]; other site 1089456006599 dimerization interface [polypeptide binding]; other site 1089456006600 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 1089456006601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456006602 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456006603 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1089456006604 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1089456006605 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 1089456006606 carboxyltransferase (CT) interaction site; other site 1089456006607 biotinylation site [posttranslational modification]; other site 1089456006608 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1089456006609 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1089456006610 Predicted ester cyclase [General function prediction only]; Region: COG5485 1089456006611 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1089456006612 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cl12263 1089456006613 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1089456006614 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456006615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006616 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1089456006617 Family description; Region: UvrD_C_2; pfam13538 1089456006618 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1089456006619 active site 1089456006620 NTP binding site [chemical binding]; other site 1089456006621 metal binding triad [ion binding]; metal-binding site 1089456006622 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1089456006623 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 1089456006624 S-adenosylmethionine binding site [chemical binding]; other site 1089456006625 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1089456006626 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1089456006627 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456006628 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1089456006629 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1089456006630 active site 1089456006631 Zn binding site [ion binding]; other site 1089456006632 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1089456006633 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1089456006634 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1089456006635 EamA-like transporter family; Region: EamA; pfam00892 1089456006636 EamA-like transporter family; Region: EamA; pfam00892 1089456006637 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1089456006638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456006639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006640 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 1089456006641 putative dimerization interface [polypeptide binding]; other site 1089456006642 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456006643 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1089456006644 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456006645 hypothetical protein; Provisional; Region: PRK07524 1089456006646 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1089456006647 PYR/PP interface [polypeptide binding]; other site 1089456006648 dimer interface [polypeptide binding]; other site 1089456006649 TPP binding site [chemical binding]; other site 1089456006650 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456006651 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 1089456006652 TPP-binding site [chemical binding]; other site 1089456006653 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1089456006654 Na binding site [ion binding]; other site 1089456006655 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1089456006656 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1089456006657 Na binding site [ion binding]; other site 1089456006658 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1089456006659 SnoaL-like domain; Region: SnoaL_3; pfam13474 1089456006660 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1089456006661 agmatinase; Region: agmatinase; TIGR01230 1089456006662 oligomer interface [polypeptide binding]; other site 1089456006663 putative active site [active] 1089456006664 Mn binding site [ion binding]; other site 1089456006665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456006666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456006667 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 1089456006668 dimerization interface [polypeptide binding]; other site 1089456006669 PAS domain; Region: PAS_9; pfam13426 1089456006670 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 1089456006671 putative active site [active] 1089456006672 heme pocket [chemical binding]; other site 1089456006673 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 1089456006674 PAS domain; Region: PAS_9; pfam13426 1089456006675 putative active site [active] 1089456006676 heme pocket [chemical binding]; other site 1089456006677 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456006678 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456006679 dimer interface [polypeptide binding]; other site 1089456006680 putative CheW interface [polypeptide binding]; other site 1089456006681 DTW domain; Region: DTW; cl01221 1089456006682 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1089456006683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456006684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456006685 Walker A/P-loop; other site 1089456006686 Walker A/P-loop; other site 1089456006687 ATP binding site [chemical binding]; other site 1089456006688 ATP binding site [chemical binding]; other site 1089456006689 Q-loop/lid; other site 1089456006690 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456006691 Q-loop/lid; other site 1089456006692 ABC transporter signature motif; other site 1089456006693 ABC transporter signature motif; other site 1089456006694 Walker B; other site 1089456006695 Walker B; other site 1089456006696 D-loop; other site 1089456006697 H-loop/switch region; other site 1089456006698 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456006699 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1089456006700 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1089456006701 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 1089456006702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1089456006703 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1089456006704 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1089456006705 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1089456006706 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1089456006707 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1089456006708 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1089456006709 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 1089456006710 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1089456006711 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 1089456006712 DNA binding residues [nucleotide binding] 1089456006713 dimerization interface [polypeptide binding]; other site 1089456006714 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 1089456006715 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456006716 metal binding site [ion binding]; metal-binding site 1089456006717 active site 1089456006718 I-site; other site 1089456006719 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 1089456006720 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1089456006721 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456006722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456006723 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456006724 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1089456006725 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1089456006726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456006727 active site 1089456006728 phosphorylation site [posttranslational modification] 1089456006729 intermolecular recognition site; other site 1089456006730 dimerization interface [polypeptide binding]; other site 1089456006731 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 1089456006732 DNA binding site [nucleotide binding] 1089456006733 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1089456006734 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 1089456006735 dimer interface [polypeptide binding]; other site 1089456006736 phosphorylation site [posttranslational modification] 1089456006737 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456006738 ATP binding site [chemical binding]; other site 1089456006739 Mg2+ binding site [ion binding]; other site 1089456006740 G-X-G motif; other site 1089456006741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1089456006742 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1089456006743 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1089456006744 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 1089456006745 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1089456006746 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1089456006747 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1089456006748 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1089456006749 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1089456006750 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1089456006751 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 1089456006752 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1089456006753 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1089456006754 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1089456006755 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1089456006756 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1089456006757 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1089456006758 Repair protein; Region: Repair_PSII; pfam04536 1089456006759 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1089456006760 Repair protein; Region: Repair_PSII; pfam04536 1089456006761 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1089456006762 FHIPEP family; Region: FHIPEP; pfam00771 1089456006763 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1089456006764 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 1089456006765 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1089456006766 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 1089456006767 P-loop; other site 1089456006768 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1089456006769 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456006770 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1089456006771 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 1089456006772 DNA binding residues [nucleotide binding] 1089456006773 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1089456006774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456006775 active site 1089456006776 phosphorylation site [posttranslational modification] 1089456006777 intermolecular recognition site; other site 1089456006778 dimerization interface [polypeptide binding]; other site 1089456006779 Chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheZ; COG3143 1089456006780 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 1089456006781 putative binding surface; other site 1089456006782 active site 1089456006783 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1089456006784 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1089456006785 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456006786 ATP binding site [chemical binding]; other site 1089456006787 Mg2+ binding site [ion binding]; other site 1089456006788 G-X-G motif; other site 1089456006789 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 1089456006790 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1089456006791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456006792 active site 1089456006793 phosphorylation site [posttranslational modification] 1089456006794 intermolecular recognition site; other site 1089456006795 dimerization interface [polypeptide binding]; other site 1089456006796 CheB methylesterase; Region: CheB_methylest; pfam01339 1089456006797 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1089456006798 flagellar motor protein; Reviewed; Region: motC; PRK09109 1089456006799 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1089456006800 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1089456006801 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456006802 ligand binding site [chemical binding]; other site 1089456006803 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1089456006804 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 1089456006805 P-loop; other site 1089456006806 Magnesium ion binding site [ion binding]; other site 1089456006807 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 1089456006808 Magnesium ion binding site [ion binding]; other site 1089456006809 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 1089456006810 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 1089456006811 putative CheA interaction surface; other site 1089456006812 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1089456006813 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 1089456006814 C-terminal domain interface [polypeptide binding]; other site 1089456006815 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456006816 GSH binding site (G-site) [chemical binding]; other site 1089456006817 dimer interface [polypeptide binding]; other site 1089456006818 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1089456006819 N-terminal domain interface [polypeptide binding]; other site 1089456006820 dimer interface [polypeptide binding]; other site 1089456006821 substrate binding pocket (H-site) [chemical binding]; other site 1089456006822 Predicted transcriptional regulator [Transcription]; Region: COG2378 1089456006823 HTH domain; Region: HTH_11; pfam08279 1089456006824 WYL domain; Region: WYL; pfam13280 1089456006825 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1089456006826 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1089456006827 short chain dehydrogenase; Provisional; Region: PRK12937 1089456006828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456006829 NAD(P) binding site [chemical binding]; other site 1089456006830 active site 1089456006831 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1089456006832 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1089456006833 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1089456006834 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1089456006835 Walker A/P-loop; other site 1089456006836 ATP binding site [chemical binding]; other site 1089456006837 Q-loop/lid; other site 1089456006838 ABC transporter signature motif; other site 1089456006839 Walker B; other site 1089456006840 D-loop; other site 1089456006841 H-loop/switch region; other site 1089456006842 heme exporter protein CcmB; Region: ccmB; TIGR01190 1089456006843 heme exporter protein CcmC; Region: ccmC; TIGR01191 1089456006844 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1089456006845 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1089456006846 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1089456006847 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 1089456006848 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 1089456006849 catalytic residues [active] 1089456006850 central insert; other site 1089456006851 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1089456006852 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1089456006853 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1089456006854 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456006855 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 1089456006856 DNA binding residues [nucleotide binding] 1089456006857 dimerization interface [polypeptide binding]; other site 1089456006858 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1089456006859 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 1089456006860 homodimer interface [polypeptide binding]; other site 1089456006861 homotetramer interface [polypeptide binding]; other site 1089456006862 active site pocket [active] 1089456006863 cleavage site 1089456006864 Proteobacterial glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK_like_proteobact; cd07794 1089456006865 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1089456006866 N- and C-terminal domain interface [polypeptide binding]; other site 1089456006867 active site 1089456006868 MgATP binding site [chemical binding]; other site 1089456006869 catalytic site [active] 1089456006870 metal binding site [ion binding]; metal-binding site 1089456006871 putative homotetramer interface [polypeptide binding]; other site 1089456006872 putative homodimer interface [polypeptide binding]; other site 1089456006873 putative glycerol binding site [chemical binding]; other site 1089456006874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1089456006875 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456006876 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1089456006877 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1089456006878 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1089456006879 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1089456006880 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1089456006881 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1089456006882 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 1089456006883 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 1089456006884 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1089456006885 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1089456006886 conserved hypothetical protein; Region: TIGR02231 1089456006887 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 1089456006888 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 1089456006889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 1089456006890 Ion transport protein; Region: Ion_trans; pfam00520 1089456006891 Ion channel; Region: Ion_trans_2; pfam07885 1089456006892 Urea transporter; Region: UT; cl01829 1089456006893 pyruvate kinase; Provisional; Region: PRK06247 1089456006894 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 1089456006895 domain interfaces; other site 1089456006896 active site 1089456006897 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1089456006898 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1089456006899 MOFRL family; Region: MOFRL; pfam05161 1089456006900 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1089456006901 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1089456006902 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1089456006903 glyoxylate carboligase; Provisional; Region: PRK11269 1089456006904 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1089456006905 PYR/PP interface [polypeptide binding]; other site 1089456006906 dimer interface [polypeptide binding]; other site 1089456006907 TPP binding site [chemical binding]; other site 1089456006908 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456006909 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 1089456006910 TPP-binding site [chemical binding]; other site 1089456006911 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1089456006912 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1089456006913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456006914 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1089456006915 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1089456006916 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 1089456006917 FeS/SAM binding site; other site 1089456006918 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1089456006919 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 1089456006920 active site 1089456006921 xanthine permease; Region: pbuX; TIGR03173 1089456006922 PAAR motif; Region: PAAR_motif; pfam05488 1089456006923 PGAP1-like protein; Region: PGAP1; pfam07819 1089456006924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1089456006925 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456006926 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456006927 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1089456006928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1089456006929 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1089456006930 Predicted membrane protein [Function unknown]; Region: COG3748 1089456006931 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1089456006932 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456006933 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1089456006934 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1089456006935 Allantoicase [Nucleotide transport and metabolism]; Region: Alc; COG4266 1089456006936 Allantoicase repeat; Region: Allantoicase; pfam03561 1089456006937 Allantoicase repeat; Region: Allantoicase; pfam03561 1089456006938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1089456006939 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1089456006940 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1089456006941 active site 1089456006942 catalytic site [active] 1089456006943 tetramer interface [polypeptide binding]; other site 1089456006944 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 1089456006945 active site 1089456006946 homotetramer interface [polypeptide binding]; other site 1089456006947 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1089456006948 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1089456006949 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1089456006950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456006951 DNA-binding site [nucleotide binding]; DNA binding site 1089456006952 FCD domain; Region: FCD; pfam07729 1089456006953 guanine deaminase; Provisional; Region: PRK09228 1089456006954 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 1089456006955 active site 1089456006956 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1089456006957 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1089456006958 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1089456006959 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1089456006960 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1089456006961 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456006962 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1089456006963 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 1089456006964 catalytic loop [active] 1089456006965 iron binding site [ion binding]; other site 1089456006966 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1089456006967 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1089456006968 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 1089456006969 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1089456006970 Di-iron ligands [ion binding]; other site 1089456006971 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1089456006972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456006973 DNA-binding site [nucleotide binding]; DNA binding site 1089456006974 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1089456006975 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1089456006976 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1089456006977 Walker A/P-loop; other site 1089456006978 ATP binding site [chemical binding]; other site 1089456006979 Q-loop/lid; other site 1089456006980 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1089456006981 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1089456006982 ABC transporter signature motif; other site 1089456006983 Walker B; other site 1089456006984 D-loop; other site 1089456006985 H-loop/switch region; other site 1089456006986 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1089456006987 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 1089456006988 FtsZ protein binding site [polypeptide binding]; other site 1089456006989 Ligase N family; Region: LIGANc; smart00532 1089456006990 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 1089456006991 nucleotide binding pocket [chemical binding]; other site 1089456006992 K-X-D-G motif; other site 1089456006993 catalytic site [active] 1089456006994 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1089456006995 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1089456006996 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1089456006997 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 1089456006998 Dimer interface [polypeptide binding]; other site 1089456006999 BRCT sequence motif; other site 1089456007000 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1089456007001 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 1089456007002 substrate binding pocket [chemical binding]; other site 1089456007003 membrane-bound complex binding site; other site 1089456007004 hinge residues; other site 1089456007005 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1089456007006 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 1089456007007 Walker A motif; other site 1089456007008 ATP binding site [chemical binding]; other site 1089456007009 Walker B motif; other site 1089456007010 arginine finger; other site 1089456007011 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1089456007012 hypothetical protein; Validated; Region: PRK00153 1089456007013 recombination protein RecR; Reviewed; Region: recR; PRK00076 1089456007014 RecR protein; Region: RecR; pfam02132 1089456007015 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 1089456007016 putative active site [active] 1089456007017 putative metal-binding site [ion binding]; other site 1089456007018 tetramer interface [polypeptide binding]; other site 1089456007019 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456007020 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456007021 active site 1089456007022 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 1089456007023 short chain dehydrogenase; Provisional; Region: PRK06181 1089456007024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456007025 NAD(P) binding site [chemical binding]; other site 1089456007026 active site 1089456007027 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1089456007028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1089456007029 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1089456007030 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456007031 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1089456007032 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1089456007033 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1089456007034 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456007035 active site 1089456007036 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1089456007037 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 1089456007038 ligand binding site [chemical binding]; other site 1089456007039 flexible hinge region; other site 1089456007040 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 1089456007041 putative switch regulator; other site 1089456007042 non-specific DNA interactions [nucleotide binding]; other site 1089456007043 DNA binding site [nucleotide binding] 1089456007044 sequence specific DNA binding site [nucleotide binding]; other site 1089456007045 putative cAMP binding site [chemical binding]; other site 1089456007046 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1089456007047 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 1089456007048 FeS/SAM binding site; other site 1089456007049 HemN C-terminal domain; Region: HemN_C; pfam06969 1089456007050 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1089456007051 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1089456007052 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1089456007053 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1089456007054 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 1089456007055 metal-binding site [ion binding] 1089456007056 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1089456007057 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1089456007058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1089456007059 FixH; Region: FixH; pfam05751 1089456007060 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1089456007061 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1089456007062 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1089456007063 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1089456007064 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456007065 Cytochrome c; Region: Cytochrom_C; cl11414 1089456007066 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 1089456007067 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1089456007068 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1089456007069 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 1089456007070 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1089456007071 Low-spin heme binding site [chemical binding]; other site 1089456007072 Putative water exit pathway; other site 1089456007073 Binuclear center (active site) [active] 1089456007074 Putative proton exit pathway; other site 1089456007075 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1089456007076 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456007077 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456007078 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 1089456007079 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1089456007080 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1089456007081 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 1089456007082 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1089456007083 Low-spin heme binding site [chemical binding]; other site 1089456007084 Putative water exit pathway; other site 1089456007085 Binuclear center (active site) [active] 1089456007086 Putative proton exit pathway; other site 1089456007087 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1089456007088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456007089 NAD(P) binding site [chemical binding]; other site 1089456007090 active site 1089456007091 PAS domain; Region: PAS_9; pfam13426 1089456007092 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 1089456007093 putative active site [active] 1089456007094 heme pocket [chemical binding]; other site 1089456007095 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456007096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456007097 dimer interface [polypeptide binding]; other site 1089456007098 putative CheW interface [polypeptide binding]; other site 1089456007099 aconitate hydratase; Validated; Region: PRK09277 1089456007100 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1089456007101 substrate binding site [chemical binding]; other site 1089456007102 ligand binding site [chemical binding]; other site 1089456007103 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 1089456007104 substrate binding site [chemical binding]; other site 1089456007105 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1089456007106 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1089456007107 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 1089456007108 CPxP motif; other site 1089456007109 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456007110 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456007111 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1089456007112 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456007113 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456007114 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456007115 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 1089456007116 homotrimer interaction site [polypeptide binding]; other site 1089456007117 putative active site [active] 1089456007118 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1089456007119 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456007120 putative substrate translocation pore; other site 1089456007121 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456007122 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1089456007123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456007124 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 1089456007125 dimerization interface [polypeptide binding]; other site 1089456007126 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1089456007127 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1089456007128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 1089456007129 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1089456007130 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1089456007131 active site 1089456007132 catalytic site [active] 1089456007133 substrate binding site [chemical binding]; other site 1089456007134 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1089456007135 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1089456007136 Protein of unknown function, DUF486; Region: DUF486; pfam04342 1089456007137 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1089456007138 putative lipid binding site [chemical binding]; other site 1089456007139 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 1089456007140 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1089456007141 dimer interface [polypeptide binding]; other site 1089456007142 active site 1089456007143 citrylCoA binding site [chemical binding]; other site 1089456007144 NADH binding [chemical binding]; other site 1089456007145 cationic pore residues; other site 1089456007146 oxalacetate/citrate binding site [chemical binding]; other site 1089456007147 coenzyme A binding site [chemical binding]; other site 1089456007148 catalytic triad [active] 1089456007149 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 1089456007150 SdhD (CybS) interface [polypeptide binding]; other site 1089456007151 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 1089456007152 SdhC subunit interface [polypeptide binding]; other site 1089456007153 proximal heme binding site [chemical binding]; other site 1089456007154 cardiolipin binding site; other site 1089456007155 Iron-sulfur protein interface; other site 1089456007156 proximal quinone binding site [chemical binding]; other site 1089456007157 L-aspartate oxidase; Provisional; Region: PRK06175 1089456007158 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1089456007159 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1089456007160 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1089456007161 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1089456007162 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1089456007163 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 1089456007164 TPP-binding site [chemical binding]; other site 1089456007165 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1089456007166 PYR/PP interface [polypeptide binding]; other site 1089456007167 dimer interface [polypeptide binding]; other site 1089456007168 TPP binding site [chemical binding]; other site 1089456007169 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1089456007170 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 1089456007171 E3 interaction surface; other site 1089456007172 lipoyl attachment site [posttranslational modification]; other site 1089456007173 e3 binding domain; Region: E3_binding; pfam02817 1089456007174 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1089456007175 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1089456007176 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1089456007177 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456007178 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1089456007179 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1089456007180 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1089456007181 CoA-ligase; Region: Ligase_CoA; pfam00549 1089456007182 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1089456007183 CoA binding domain; Region: CoA_binding; pfam02629 1089456007184 CoA-ligase; Region: Ligase_CoA; pfam00549 1089456007185 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1089456007186 Predicted membrane protein [Function unknown]; Region: COG3821 1089456007187 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 1089456007188 CoenzymeA binding site [chemical binding]; other site 1089456007189 subunit interaction site [polypeptide binding]; other site 1089456007190 PHB binding site; other site 1089456007191 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 1089456007192 CoenzymeA binding site [chemical binding]; other site 1089456007193 subunit interaction site [polypeptide binding]; other site 1089456007194 PHB binding site; other site 1089456007195 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1089456007196 heat shock protein 90; Provisional; Region: PRK05218 1089456007197 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456007198 ATP binding site [chemical binding]; other site 1089456007199 Mg2+ binding site [ion binding]; other site 1089456007200 G-X-G motif; other site 1089456007201 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1089456007202 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 1089456007203 oligomerization interface [polypeptide binding]; other site 1089456007204 active site 1089456007205 metal binding site [ion binding]; metal-binding site 1089456007206 Cupin domain; Region: Cupin_2; cl17218 1089456007207 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456007208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456007209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456007210 cytochrome c-550; Provisional; Region: psbV; cl17239 1089456007211 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456007212 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456007213 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1089456007214 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456007215 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1089456007216 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456007217 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456007218 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1089456007219 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 1089456007220 catalytic loop [active] 1089456007221 iron binding site [ion binding]; other site 1089456007222 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1089456007223 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1089456007224 MarR family; Region: MarR; pfam01047 1089456007225 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 1089456007226 membrane-bound complex binding site; other site 1089456007227 hinge residues; other site 1089456007228 Amidohydrolase; Region: Amidohydro_2; pfam04909 1089456007229 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 1089456007230 Predicted transcriptional regulators [Transcription]; Region: COG1733 1089456007231 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1089456007232 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1089456007233 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 1089456007234 dimerization interface [polypeptide binding]; other site 1089456007235 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456007236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456007237 dimer interface [polypeptide binding]; other site 1089456007238 putative CheW interface [polypeptide binding]; other site 1089456007239 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1089456007240 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 1089456007241 dimer interface [polypeptide binding]; other site 1089456007242 active site 1089456007243 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 1089456007244 active site 1 [active] 1089456007245 dimer interface [polypeptide binding]; other site 1089456007246 active site 2 [active] 1089456007247 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 1089456007248 dimerization interface [polypeptide binding]; other site 1089456007249 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 1089456007250 dimer interface [polypeptide binding]; other site 1089456007251 phosphorylation site [posttranslational modification] 1089456007252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456007253 ATP binding site [chemical binding]; other site 1089456007254 Mg2+ binding site [ion binding]; other site 1089456007255 G-X-G motif; other site 1089456007256 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456007257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456007258 active site 1089456007259 phosphorylation site [posttranslational modification] 1089456007260 intermolecular recognition site; other site 1089456007261 dimerization interface [polypeptide binding]; other site 1089456007262 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1089456007263 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1089456007264 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 1089456007265 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1089456007266 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1089456007267 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1089456007268 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1089456007269 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 1089456007270 catalytic core [active] 1089456007271 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1089456007272 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1089456007273 acyl-activating enzyme (AAE) consensus motif; other site 1089456007274 putative AMP binding site [chemical binding]; other site 1089456007275 putative active site [active] 1089456007276 putative CoA binding site [chemical binding]; other site 1089456007277 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 1089456007278 CoenzymeA binding site [chemical binding]; other site 1089456007279 subunit interaction site [polypeptide binding]; other site 1089456007280 PHB binding site; other site 1089456007281 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456007282 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456007283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456007284 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456007285 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456007286 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1089456007287 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456007288 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1089456007289 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 1089456007290 C-terminal domain interface [polypeptide binding]; other site 1089456007291 GSH binding site (G-site) [chemical binding]; other site 1089456007292 dimer interface [polypeptide binding]; other site 1089456007293 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1089456007294 N-terminal domain interface [polypeptide binding]; other site 1089456007295 dimer interface [polypeptide binding]; other site 1089456007296 substrate binding pocket (H-site) [chemical binding]; other site 1089456007297 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1089456007298 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1089456007299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456007300 putative substrate translocation pore; other site 1089456007301 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1089456007302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456007303 DNA-binding site [nucleotide binding]; DNA binding site 1089456007304 FCD domain; Region: FCD; pfam07729 1089456007305 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1089456007306 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1089456007307 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456007308 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456007309 enoyl-CoA hydratase; Provisional; Region: PRK08138 1089456007310 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 1089456007311 substrate binding site [chemical binding]; other site 1089456007312 oxyanion hole (OAH) forming residues; other site 1089456007313 trimer interface [polypeptide binding]; other site 1089456007314 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1089456007315 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1089456007316 Bacterial transcriptional regulator; Region: IclR; pfam01614 1089456007317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456007318 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456007319 active site 1089456007320 potassium-transporting ATPase subunit F; Provisional; Region: kdbF; PRK14740 1089456007321 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1089456007322 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1089456007323 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1089456007324 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1089456007325 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1089456007326 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1089456007327 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1089456007328 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 1089456007329 Ligand Binding Site [chemical binding]; other site 1089456007330 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1089456007331 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 1089456007332 dimer interface [polypeptide binding]; other site 1089456007333 phosphorylation site [posttranslational modification] 1089456007334 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456007335 ATP binding site [chemical binding]; other site 1089456007336 Mg2+ binding site [ion binding]; other site 1089456007337 G-X-G motif; other site 1089456007338 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1089456007339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456007340 active site 1089456007341 phosphorylation site [posttranslational modification] 1089456007342 intermolecular recognition site; other site 1089456007343 dimerization interface [polypeptide binding]; other site 1089456007344 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 1089456007345 DNA binding site [nucleotide binding] 1089456007346 glutaminase; Provisional; Region: PRK00971 1089456007347 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1089456007348 hypothetical protein; Provisional; Region: PRK10279 1089456007349 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1089456007350 active site 1089456007351 nucleophile elbow; other site 1089456007352 selenophosphate synthetase; Provisional; Region: PRK00943 1089456007353 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 1089456007354 dimerization interface [polypeptide binding]; other site 1089456007355 putative ATP binding site [chemical binding]; other site 1089456007356 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1089456007357 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1089456007358 active site residue [active] 1089456007359 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1089456007360 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1089456007361 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 1089456007362 dimerization interface [polypeptide binding]; other site 1089456007363 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456007364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456007365 dimer interface [polypeptide binding]; other site 1089456007366 putative CheW interface [polypeptide binding]; other site 1089456007367 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1089456007368 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1089456007369 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1089456007370 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 1089456007371 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1089456007372 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1089456007373 NAD(P) binding site [chemical binding]; other site 1089456007374 substrate binding site [chemical binding]; other site 1089456007375 dimer interface [polypeptide binding]; other site 1089456007376 short chain dehydrogenase; Provisional; Region: PRK06172 1089456007377 classical (c) SDRs; Region: SDR_c; cd05233 1089456007378 NAD(P) binding site [chemical binding]; other site 1089456007379 active site 1089456007380 bile acid transporter; Region: bass; TIGR00841 1089456007381 Sodium Bile acid symporter family; Region: SBF; cl17470 1089456007382 benzoate transporter; Region: benE; TIGR00843 1089456007383 Benzoate membrane transport protein; Region: BenE; pfam03594 1089456007384 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1089456007385 MarR family; Region: MarR_2; pfam12802 1089456007386 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1089456007387 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 1089456007388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456007389 homodimer interface [polypeptide binding]; other site 1089456007390 catalytic residue [active] 1089456007391 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456007392 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 1089456007393 putative C-terminal domain interface [polypeptide binding]; other site 1089456007394 putative GSH binding site (G-site) [chemical binding]; other site 1089456007395 putative dimer interface [polypeptide binding]; other site 1089456007396 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1089456007397 N-terminal domain interface [polypeptide binding]; other site 1089456007398 dimer interface [polypeptide binding]; other site 1089456007399 substrate binding pocket (H-site) [chemical binding]; other site 1089456007400 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456007401 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007402 RHS protein; Region: RHS; pfam03527 1089456007403 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1089456007404 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456007405 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007406 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007407 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007408 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007409 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007410 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007411 RHS Repeat; Region: RHS_repeat; pfam05593 1089456007412 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1089456007413 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1089456007414 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456007415 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456007416 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1089456007417 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1089456007418 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1089456007419 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1089456007420 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1089456007421 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1089456007422 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1089456007423 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1089456007424 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1089456007425 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1089456007426 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1089456007427 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1089456007428 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 1089456007429 Walker A motif; other site 1089456007430 ATP binding site [chemical binding]; other site 1089456007431 Walker B motif; other site 1089456007432 arginine finger; other site 1089456007433 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 1089456007434 Walker A motif; other site 1089456007435 ATP binding site [chemical binding]; other site 1089456007436 Walker B motif; other site 1089456007437 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1089456007438 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1089456007439 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 1089456007440 Walker A motif; other site 1089456007441 ATP binding site [chemical binding]; other site 1089456007442 Walker B motif; other site 1089456007443 arginine finger; other site 1089456007444 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456007445 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1089456007446 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 1089456007447 phosphopeptide binding site; other site 1089456007448 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 1089456007449 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 1089456007450 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1089456007451 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1089456007452 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1089456007453 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1089456007454 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1089456007455 G1 box; other site 1089456007456 GTP/Mg2+ binding site [chemical binding]; other site 1089456007457 G2 box; other site 1089456007458 Switch I region; other site 1089456007459 G3 box; other site 1089456007460 Switch II region; other site 1089456007461 G4 box; other site 1089456007462 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1089456007463 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1089456007464 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 1089456007465 Protein phosphatase 2C; Region: PP2C; pfam00481 1089456007466 active site 1089456007467 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1089456007468 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1089456007469 active site 1089456007470 ATP binding site [chemical binding]; other site 1089456007471 substrate binding site [chemical binding]; other site 1089456007472 activation loop (A-loop); other site 1089456007473 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1089456007474 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 1089456007475 Hemerythrin; Region: Hemerythrin; cd12107 1089456007476 Fe binding site [ion binding]; other site 1089456007477 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 1089456007478 homodecamer interface [polypeptide binding]; other site 1089456007479 GTP cyclohydrolase I; Provisional; Region: PLN03044 1089456007480 active site 1089456007481 putative catalytic site residues [active] 1089456007482 zinc binding site [ion binding]; other site 1089456007483 GTP-CH-I/GFRP interaction surface; other site 1089456007484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1089456007485 Smr domain; Region: Smr; pfam01713 1089456007486 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 1089456007487 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456007488 catalytic triad [active] 1089456007489 conserved cis-peptide bond; other site 1089456007490 HemK family putative methylases; Region: hemK_fam; TIGR00536 1089456007491 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 1089456007492 S-adenosylmethionine binding site [chemical binding]; other site 1089456007493 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1089456007494 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1089456007495 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1089456007496 Tetramer interface [polypeptide binding]; other site 1089456007497 active site 1089456007498 FMN-binding site [chemical binding]; other site 1089456007499 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456007500 putative substrate translocation pore; other site 1089456007501 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1089456007502 intersubunit interface [polypeptide binding]; other site 1089456007503 active site 1089456007504 Zn2+ binding site [ion binding]; other site 1089456007505 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1089456007506 Cupin domain; Region: Cupin_2; cl17218 1089456007507 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 1089456007508 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1089456007509 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1089456007510 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1089456007511 minor groove reading motif; other site 1089456007512 helix-hairpin-helix signature motif; other site 1089456007513 substrate binding pocket [chemical binding]; other site 1089456007514 active site 1089456007515 spermidine synthase; Provisional; Region: PRK00811 1089456007516 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 1089456007517 S-adenosylmethionine binding site [chemical binding]; other site 1089456007518 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1089456007519 Strictosidine synthase; Region: Str_synth; pfam03088 1089456007520 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1089456007521 Sulfatase; Region: Sulfatase; pfam00884 1089456007522 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 1089456007523 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1089456007524 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 1089456007525 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1089456007526 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 1089456007527 type III secretion system protein; Validated; Region: PRK06933 1089456007528 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1089456007529 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 1089456007530 Type III secretion protein YscO; Region: YscO; pfam07321 1089456007531 type III secretion system ATPase; Provisional; Region: PRK06936 1089456007532 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1089456007533 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 1089456007534 Walker A motif/ATP binding site; other site 1089456007535 Walker B motif; other site 1089456007536 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 1089456007537 TyeA; Region: TyeA; pfam09059 1089456007538 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 1089456007539 Type III secretion system YscX (type_III_YscX); Region: Type_III_YscX; cl09710 1089456007540 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 1089456007541 FHIPEP family; Region: FHIPEP; pfam00771 1089456007542 type III secretion system regulator LcrR; Region: LcrR; TIGR02572 1089456007543 LcrG protein; Region: LcrG; cl06311 1089456007544 V antigen (LcrV) protein; Region: LcrV; pfam04792 1089456007545 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1089456007546 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 1089456007547 binding surface 1089456007548 TPR motif; other site 1089456007549 Uncharacterized conserved protein [Function unknown]; Region: COG5613 1089456007550 YopD protein; Region: YopD; pfam05844 1089456007551 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1089456007552 type III secretion system chaperone YscW; Region: YscW; TIGR02567 1089456007553 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456007554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456007555 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456007556 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 1089456007557 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1089456007558 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1089456007559 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456007560 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456007561 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1089456007562 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1089456007563 Type III secretion needle MxiH like; Region: MxiH; cl09641 1089456007564 Bacterial type II secretion system chaperone protein (type_III_yscG); Region: Type_III_YscG; pfam09477 1089456007565 YopR Core; Region: YopR_core; cl07585 1089456007566 type III secretion apparatus protein, YscI/HrpB, C-terminal domain; Region: yscI_hrpB_dom; TIGR02497 1089456007567 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 1089456007568 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 1089456007569 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1089456007570 Flagellar assembly protein FliH; Region: FliH; pfam02108 1089456007571 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1089456007572 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1089456007573 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1089456007574 Switch II region; other site 1089456007575 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1089456007576 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1089456007577 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1089456007578 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1089456007579 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456007580 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456007581 metal binding site [ion binding]; metal-binding site 1089456007582 active site 1089456007583 I-site; other site 1089456007584 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 1089456007585 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1089456007586 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1089456007587 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1089456007588 catalytic triad [active] 1089456007589 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1089456007590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1089456007591 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1089456007592 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1089456007593 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1089456007594 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1089456007595 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1089456007596 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 1089456007597 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456007598 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456007599 Predicted permeases [General function prediction only]; Region: COG0679 1089456007600 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1089456007601 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 1089456007602 dimer interface [polypeptide binding]; other site 1089456007603 active site 1089456007604 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1089456007605 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 1089456007606 substrate binding site [chemical binding]; other site 1089456007607 oxyanion hole (OAH) forming residues; other site 1089456007608 trimer interface [polypeptide binding]; other site 1089456007609 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1089456007610 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456007611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456007612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456007613 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 1089456007614 putative effector binding pocket; other site 1089456007615 putative dimerization interface [polypeptide binding]; other site 1089456007616 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 1089456007617 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456007618 active site 1089456007619 catalytic tetrad [active] 1089456007620 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1089456007621 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1089456007622 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1089456007623 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1089456007624 catalytic triad [active] 1089456007625 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 1089456007626 ADP-ribose binding site [chemical binding]; other site 1089456007627 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1089456007628 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 1089456007629 substrate binding site [chemical binding]; other site 1089456007630 oxyanion hole (OAH) forming residues; other site 1089456007631 trimer interface [polypeptide binding]; other site 1089456007632 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456007633 Coenzyme A binding pocket [chemical binding]; other site 1089456007634 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1089456007635 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1089456007636 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 1089456007637 catalytic residues [active] 1089456007638 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1089456007639 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1089456007640 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1089456007641 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 1089456007642 Ligand Binding Site [chemical binding]; other site 1089456007643 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1089456007644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456007645 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1089456007646 substrate binding site [chemical binding]; other site 1089456007647 dimerization interface [polypeptide binding]; other site 1089456007648 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1089456007649 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 1089456007650 Active Sites [active] 1089456007651 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 1089456007652 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1089456007653 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1089456007654 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 1089456007655 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1089456007656 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1089456007657 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 1089456007658 DNA binding residues [nucleotide binding] 1089456007659 dimerization interface [polypeptide binding]; other site 1089456007660 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1089456007661 AAA ATPase domain; Region: AAA_16; pfam13191 1089456007662 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 1089456007663 DNA binding residues [nucleotide binding] 1089456007664 dimerization interface [polypeptide binding]; other site 1089456007665 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 1089456007666 putative active site [active] 1089456007667 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1089456007668 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1089456007669 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 1089456007670 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1089456007671 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1089456007672 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1089456007673 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1089456007674 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1089456007675 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1089456007676 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1089456007677 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1089456007678 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1089456007679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456007680 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456007681 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1089456007682 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1089456007683 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1089456007684 Cl binding site [ion binding]; other site 1089456007685 oligomer interface [polypeptide binding]; other site 1089456007686 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456007687 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1089456007688 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456007689 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 1089456007690 DNA binding residues [nucleotide binding] 1089456007691 OprF membrane domain; Region: OprF; pfam05736 1089456007692 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456007693 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456007694 ligand binding site [chemical binding]; other site 1089456007695 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1089456007696 active site 1089456007697 SAM binding site [chemical binding]; other site 1089456007698 homodimer interface [polypeptide binding]; other site 1089456007699 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 1089456007700 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1089456007701 [4Fe-4S] binding site [ion binding]; other site 1089456007702 molybdopterin cofactor binding site; other site 1089456007703 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 1089456007704 molybdopterin cofactor binding site; other site 1089456007705 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1089456007706 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1089456007707 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 1089456007708 [2Fe-2S] cluster binding site [ion binding]; other site 1089456007709 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1089456007710 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456007711 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1089456007712 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1089456007713 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1089456007714 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 1089456007715 active site 1089456007716 Protein kinase domain; Region: Pkinase; pfam00069 1089456007717 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1089456007718 active site 1089456007719 ATP binding site [chemical binding]; other site 1089456007720 substrate binding site [chemical binding]; other site 1089456007721 activation loop (A-loop); other site 1089456007722 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1089456007723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456007724 putative substrate translocation pore; other site 1089456007725 Alginate lyase; Region: Alginate_lyase2; pfam08787 1089456007726 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1089456007727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456007728 active site 1089456007729 phosphorylation site [posttranslational modification] 1089456007730 intermolecular recognition site; other site 1089456007731 dimerization interface [polypeptide binding]; other site 1089456007732 ANTAR domain; Region: ANTAR; pfam03861 1089456007733 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1089456007734 NMT1-like family; Region: NMT1_2; pfam13379 1089456007735 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1089456007736 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 1089456007737 substrate binding site [chemical binding]; other site 1089456007738 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1089456007739 substrate binding site [chemical binding]; other site 1089456007740 ligand binding site [chemical binding]; other site 1089456007741 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1089456007742 universal stress protein UspE; Provisional; Region: PRK11175 1089456007743 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 1089456007744 Ligand Binding Site [chemical binding]; other site 1089456007745 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 1089456007746 Ligand Binding Site [chemical binding]; other site 1089456007747 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1089456007748 active site 1089456007749 dinuclear metal binding site [ion binding]; other site 1089456007750 dimerization interface [polypeptide binding]; other site 1089456007751 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1089456007752 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 1089456007753 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1089456007754 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1089456007755 putative active site [active] 1089456007756 putative metal binding site [ion binding]; other site 1089456007757 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 1089456007758 substrate binding site [chemical binding]; other site 1089456007759 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1089456007760 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1089456007761 active site 1089456007762 HIGH motif; other site 1089456007763 nucleotide binding site [chemical binding]; other site 1089456007764 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1089456007765 KMSKS motif; other site 1089456007766 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1089456007767 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1089456007768 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1089456007769 active site 1089456007770 HIGH motif; other site 1089456007771 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1089456007772 KMSKS motif; other site 1089456007773 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1089456007774 tRNA binding surface [nucleotide binding]; other site 1089456007775 anticodon binding site; other site 1089456007776 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1089456007777 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1089456007778 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1089456007779 homodimer interface [polypeptide binding]; other site 1089456007780 NADP binding site [chemical binding]; other site 1089456007781 substrate binding site [chemical binding]; other site 1089456007782 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1089456007783 Beta-lactamase; Region: Beta-lactamase; pfam00144 1089456007784 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 1089456007785 dimerization interface [polypeptide binding]; other site 1089456007786 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 1089456007787 dimer interface [polypeptide binding]; other site 1089456007788 phosphorylation site [posttranslational modification] 1089456007789 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456007790 ATP binding site [chemical binding]; other site 1089456007791 Mg2+ binding site [ion binding]; other site 1089456007792 G-X-G motif; other site 1089456007793 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1089456007794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456007795 active site 1089456007796 phosphorylation site [posttranslational modification] 1089456007797 intermolecular recognition site; other site 1089456007798 dimerization interface [polypeptide binding]; other site 1089456007799 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 1089456007800 DNA binding site [nucleotide binding] 1089456007801 trigger factor; Provisional; Region: tig; PRK01490 1089456007802 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1089456007803 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1089456007804 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1089456007805 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1089456007806 oligomer interface [polypeptide binding]; other site 1089456007807 active site residues [active] 1089456007808 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1089456007809 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1089456007810 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 1089456007811 Walker A motif; other site 1089456007812 ATP binding site [chemical binding]; other site 1089456007813 Walker B motif; other site 1089456007814 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1089456007815 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1089456007816 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1089456007817 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 1089456007818 Walker A motif; other site 1089456007819 ATP binding site [chemical binding]; other site 1089456007820 Walker B motif; other site 1089456007821 arginine finger; other site 1089456007822 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1089456007823 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 1089456007824 IHF dimer interface [polypeptide binding]; other site 1089456007825 IHF - DNA interface [nucleotide binding]; other site 1089456007826 periplasmic folding chaperone; Provisional; Region: PRK10788 1089456007827 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1089456007828 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1089456007829 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1089456007830 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1089456007831 NAD binding site [chemical binding]; other site 1089456007832 homotetramer interface [polypeptide binding]; other site 1089456007833 homodimer interface [polypeptide binding]; other site 1089456007834 substrate binding site [chemical binding]; other site 1089456007835 active site 1089456007836 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1089456007837 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1089456007838 Walker A/P-loop; other site 1089456007839 ATP binding site [chemical binding]; other site 1089456007840 Q-loop/lid; other site 1089456007841 ABC transporter signature motif; other site 1089456007842 Walker B; other site 1089456007843 D-loop; other site 1089456007844 H-loop/switch region; other site 1089456007845 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1089456007846 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1089456007847 Walker A/P-loop; other site 1089456007848 ATP binding site [chemical binding]; other site 1089456007849 Q-loop/lid; other site 1089456007850 ABC transporter signature motif; other site 1089456007851 Walker B; other site 1089456007852 D-loop; other site 1089456007853 H-loop/switch region; other site 1089456007854 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1089456007855 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1089456007856 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1089456007857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456007858 dimer interface [polypeptide binding]; other site 1089456007859 conserved gate region; other site 1089456007860 putative PBP binding loops; other site 1089456007861 ABC-ATPase subunit interface; other site 1089456007862 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1089456007863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456007864 dimer interface [polypeptide binding]; other site 1089456007865 conserved gate region; other site 1089456007866 putative PBP binding loops; other site 1089456007867 ABC-ATPase subunit interface; other site 1089456007868 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1089456007869 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 1089456007870 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1089456007871 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 1089456007872 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1089456007873 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 1089456007874 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456007875 catalytic residue [active] 1089456007876 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456007877 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456007878 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456007879 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1089456007880 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1089456007881 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1089456007882 RNA/DNA hybrid binding site [nucleotide binding]; other site 1089456007883 active site 1089456007884 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 1089456007885 active site 1089456007886 catalytic site [active] 1089456007887 substrate binding site [chemical binding]; other site 1089456007888 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1089456007889 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1089456007890 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1089456007891 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 1089456007892 homodimer interface [polypeptide binding]; other site 1089456007893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456007894 catalytic residue [active] 1089456007895 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1089456007896 arginine:agmatin antiporter; Provisional; Region: PRK10644 1089456007897 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1089456007898 enoyl-CoA hydratase; Provisional; Region: PRK06142 1089456007899 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 1089456007900 substrate binding site [chemical binding]; other site 1089456007901 oxyanion hole (OAH) forming residues; other site 1089456007902 trimer interface [polypeptide binding]; other site 1089456007903 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1089456007904 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1089456007905 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1089456007906 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 1089456007907 putative NADH binding site [chemical binding]; other site 1089456007908 putative active site [active] 1089456007909 nudix motif; other site 1089456007910 putative metal binding site [ion binding]; other site 1089456007911 hypothetical protein; Provisional; Region: PRK10621 1089456007912 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1089456007913 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1089456007914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456007915 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 1089456007916 dimerization interface [polypeptide binding]; other site 1089456007917 substrate binding pocket [chemical binding]; other site 1089456007918 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1089456007919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456007920 NAD(P) binding site [chemical binding]; other site 1089456007921 active site 1089456007922 short chain dehydrogenase; Provisional; Region: PRK07035 1089456007923 classical (c) SDRs; Region: SDR_c; cd05233 1089456007924 NAD(P) binding site [chemical binding]; other site 1089456007925 active site 1089456007926 Phosphotransferase enzyme family; Region: APH; pfam01636 1089456007927 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 1089456007928 putative active site [active] 1089456007929 putative substrate binding site [chemical binding]; other site 1089456007930 ATP binding site [chemical binding]; other site 1089456007931 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 1089456007932 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 1089456007933 catalytic core [active] 1089456007934 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1089456007935 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1089456007936 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1089456007937 tandem repeat interface [polypeptide binding]; other site 1089456007938 oligomer interface [polypeptide binding]; other site 1089456007939 active site residues [active] 1089456007940 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1089456007941 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1089456007942 NADP binding site [chemical binding]; other site 1089456007943 dimer interface [polypeptide binding]; other site 1089456007944 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1089456007945 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456007946 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 1089456007947 CoenzymeA binding site [chemical binding]; other site 1089456007948 subunit interaction site [polypeptide binding]; other site 1089456007949 PHB binding site; other site 1089456007950 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456007951 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456007952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1089456007953 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1089456007954 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1089456007955 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1089456007956 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1089456007957 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 1089456007958 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1089456007959 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 1089456007960 putative deacylase active site [active] 1089456007961 Protein with unknown function (DUF469); Region: DUF469; cl01237 1089456007962 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1089456007963 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1089456007964 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 1089456007965 substrate binding pocket [chemical binding]; other site 1089456007966 dimer interface [polypeptide binding]; other site 1089456007967 inhibitor binding site; inhibition site 1089456007968 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 1089456007969 B12 binding site [chemical binding]; other site 1089456007970 cobalt ligand [ion binding]; other site 1089456007971 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1089456007972 Cytochrome c; Region: Cytochrom_C; cl11414 1089456007973 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1089456007974 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1089456007975 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1089456007976 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1089456007977 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456007978 putative substrate translocation pore; other site 1089456007979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1089456007980 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1089456007981 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1089456007982 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1089456007983 conserved cys residue [active] 1089456007984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456007985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456007986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456007987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456007988 metal binding site [ion binding]; metal-binding site 1089456007989 active site 1089456007990 I-site; other site 1089456007991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456007992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456007993 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1089456007994 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1089456007995 HPP family; Region: HPP; pfam04982 1089456007996 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 1089456007997 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 1089456007998 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1089456007999 Low-spin heme binding site [chemical binding]; other site 1089456008000 Putative water exit pathway; other site 1089456008001 Binuclear center (active site) [active] 1089456008002 Putative proton exit pathway; other site 1089456008003 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1089456008004 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1089456008005 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1089456008006 Streptomycin 6-kinase [Defense mechanisms]; Region: StrB; COG3570 1089456008007 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456008008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008009 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1089456008010 putative effector binding pocket; other site 1089456008011 dimerization interface [polypeptide binding]; other site 1089456008012 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1089456008013 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1089456008014 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1089456008015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456008016 Walker A/P-loop; other site 1089456008017 ATP binding site [chemical binding]; other site 1089456008018 Q-loop/lid; other site 1089456008019 ABC transporter signature motif; other site 1089456008020 Walker B; other site 1089456008021 D-loop; other site 1089456008022 H-loop/switch region; other site 1089456008023 TOBE domain; Region: TOBE; cl01440 1089456008024 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1089456008025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456008026 dimer interface [polypeptide binding]; other site 1089456008027 conserved gate region; other site 1089456008028 putative PBP binding loops; other site 1089456008029 ABC-ATPase subunit interface; other site 1089456008030 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1089456008031 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456008032 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1089456008033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456008034 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1089456008035 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1089456008036 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1089456008037 DEAD_2; Region: DEAD_2; pfam06733 1089456008038 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1089456008039 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1089456008040 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1089456008041 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456008042 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456008043 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456008044 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1089456008045 acyl carrier protein; Provisional; Region: acpP; PRK00982 1089456008046 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1089456008047 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456008048 EcsC protein family; Region: EcsC; pfam12787 1089456008049 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1089456008050 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1089456008051 Cl binding site [ion binding]; other site 1089456008052 oligomer interface [polypeptide binding]; other site 1089456008053 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1089456008054 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1089456008055 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456008056 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1089456008057 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 1089456008058 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1089456008059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456008060 Walker A/P-loop; other site 1089456008061 ATP binding site [chemical binding]; other site 1089456008062 Q-loop/lid; other site 1089456008063 ABC transporter signature motif; other site 1089456008064 Walker B; other site 1089456008065 D-loop; other site 1089456008066 H-loop/switch region; other site 1089456008067 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1089456008068 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456008069 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456008070 HD domain; Region: HD_3; pfam13023 1089456008071 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 1089456008072 non-specific DNA binding site [nucleotide binding]; other site 1089456008073 salt bridge; other site 1089456008074 sequence-specific DNA binding site [nucleotide binding]; other site 1089456008075 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1089456008076 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456008077 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1089456008078 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456008079 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456008080 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1089456008081 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 1089456008082 catalytic loop [active] 1089456008083 iron binding site [ion binding]; other site 1089456008084 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1089456008085 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1089456008086 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1089456008087 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1089456008088 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 1089456008089 sequence-specific DNA binding site [nucleotide binding]; other site 1089456008090 salt bridge; other site 1089456008091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456008092 Coenzyme A binding pocket [chemical binding]; other site 1089456008093 DNA polymerase II; Reviewed; Region: PRK05762 1089456008094 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1089456008095 active site 1089456008096 catalytic site [active] 1089456008097 substrate binding site [chemical binding]; other site 1089456008098 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 1089456008099 active site 1089456008100 metal-binding site 1089456008101 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 1089456008102 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456008103 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456008104 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 1089456008105 putative C-terminal domain interface [polypeptide binding]; other site 1089456008106 putative GSH binding site (G-site) [chemical binding]; other site 1089456008107 putative dimer interface [polypeptide binding]; other site 1089456008108 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1089456008109 putative N-terminal domain interface [polypeptide binding]; other site 1089456008110 putative dimer interface [polypeptide binding]; other site 1089456008111 putative substrate binding pocket (H-site) [chemical binding]; other site 1089456008112 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1089456008113 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 1089456008114 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 1089456008115 active site 1089456008116 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1089456008117 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 1089456008118 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1089456008119 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1089456008120 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1089456008121 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1089456008122 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 1089456008123 DNA binding residues [nucleotide binding] 1089456008124 dimerization interface [polypeptide binding]; other site 1089456008125 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1089456008126 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1089456008127 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 1089456008128 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1089456008129 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1089456008130 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1089456008131 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1089456008132 glutamine binding [chemical binding]; other site 1089456008133 catalytic triad [active] 1089456008134 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 1089456008135 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 1089456008136 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1089456008137 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1089456008138 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1089456008139 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 1089456008140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456008141 putative substrate translocation pore; other site 1089456008142 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456008143 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1089456008144 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1089456008145 RNA polymerase Rpb5, C-terminal domain; Region: RNA_pol_Rpb5_C; cl00883 1089456008146 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1089456008147 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1089456008148 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 1089456008149 N-terminal plug; other site 1089456008150 ligand-binding site [chemical binding]; other site 1089456008151 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456008152 FecR protein; Region: FecR; pfam04773 1089456008153 RNA polymerase sigma factor; Provisional; Region: PRK12528 1089456008154 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456008155 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 1089456008156 DNA binding residues [nucleotide binding] 1089456008157 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 1089456008158 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1089456008159 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1089456008160 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1089456008161 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1089456008162 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1089456008163 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456008164 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456008165 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1089456008166 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 1089456008167 FeS/SAM binding site; other site 1089456008168 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1089456008169 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1089456008170 ATP cone domain; Region: ATP-cone; pfam03477 1089456008171 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1089456008172 effector binding site; other site 1089456008173 active site 1089456008174 Zn binding site [ion binding]; other site 1089456008175 glycine loop; other site 1089456008176 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456008177 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 1089456008178 S-adenosylmethionine binding site [chemical binding]; other site 1089456008179 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1089456008180 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 1089456008181 N-terminal plug; other site 1089456008182 ligand-binding site [chemical binding]; other site 1089456008183 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1089456008184 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1089456008185 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1089456008186 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1089456008187 Uncharacterized conserved protein [Function unknown]; Region: COG4744 1089456008188 YcaO domain protein; Region: TIGR03549 1089456008189 OsmC-like protein; Region: OsmC; pfam02566 1089456008190 YcaO-like family; Region: YcaO; pfam02624 1089456008191 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1089456008192 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 1089456008193 THF binding site; other site 1089456008194 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 1089456008195 substrate binding site [chemical binding]; other site 1089456008196 THF binding site; other site 1089456008197 zinc-binding site [ion binding]; other site 1089456008198 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1089456008199 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1089456008200 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 1089456008201 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1089456008202 putative active site [active] 1089456008203 heme pocket [chemical binding]; other site 1089456008204 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 1089456008205 putative active site [active] 1089456008206 heme pocket [chemical binding]; other site 1089456008207 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1089456008208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456008209 dimer interface [polypeptide binding]; other site 1089456008210 putative CheW interface [polypeptide binding]; other site 1089456008211 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1089456008212 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1089456008213 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1089456008214 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1089456008215 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1089456008216 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1089456008217 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456008218 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 1089456008219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456008220 AAA domain; Region: AAA_21; pfam13304 1089456008221 Walker A/P-loop; other site 1089456008222 ATP binding site [chemical binding]; other site 1089456008223 AAA domain; Region: AAA_21; pfam13304 1089456008224 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1089456008225 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 1089456008226 putative heme binding pocket [chemical binding]; other site 1089456008227 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1089456008228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456008229 Coenzyme A binding pocket [chemical binding]; other site 1089456008230 Peptidase_C39 like family; Region: DUF3335; pfam11814 1089456008231 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1089456008232 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1089456008233 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456008234 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456008235 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 1089456008236 Walker A motif; other site 1089456008237 ATP binding site [chemical binding]; other site 1089456008238 Walker B motif; other site 1089456008239 arginine finger; other site 1089456008240 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456008241 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1089456008242 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 1089456008243 ligand binding site [chemical binding]; other site 1089456008244 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1089456008245 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1089456008246 Walker A/P-loop; other site 1089456008247 ATP binding site [chemical binding]; other site 1089456008248 Q-loop/lid; other site 1089456008249 ABC transporter signature motif; other site 1089456008250 Walker B; other site 1089456008251 D-loop; other site 1089456008252 H-loop/switch region; other site 1089456008253 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1089456008254 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1089456008255 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 1089456008256 TM-ABC transporter signature motif; other site 1089456008257 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1089456008258 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1089456008259 DNA binding site [nucleotide binding] 1089456008260 domain linker motif; other site 1089456008261 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1089456008262 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1089456008263 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 1089456008264 substrate binding site [chemical binding]; other site 1089456008265 dimer interface [polypeptide binding]; other site 1089456008266 ATP binding site [chemical binding]; other site 1089456008267 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1089456008268 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 1089456008269 putative active site [active] 1089456008270 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1089456008271 AAA domain; Region: AAA_28; pfam13521 1089456008272 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1089456008273 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1089456008274 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 1089456008275 DNA-binding site [nucleotide binding]; DNA binding site 1089456008276 RNA-binding motif; other site 1089456008277 Predicted membrane protein [Function unknown]; Region: COG3326 1089456008278 LysR family transcriptional regulator; Provisional; Region: PRK14997 1089456008279 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008280 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 1089456008281 dimerization interface [polypeptide binding]; other site 1089456008282 azoreductase; Reviewed; Region: PRK00170 1089456008283 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456008284 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1089456008285 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456008286 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456008287 ABC transporter; Region: ABC_tran_2; pfam12848 1089456008288 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456008289 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1089456008290 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 1089456008291 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 1089456008292 active site 1089456008293 DNA binding site [nucleotide binding] 1089456008294 Int/Topo IB signature motif; other site 1089456008295 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1089456008296 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1089456008297 ERF superfamily; Region: ERF; pfam04404 1089456008298 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 1089456008299 non-specific DNA binding site [nucleotide binding]; other site 1089456008300 Predicted transcriptional regulator [Transcription]; Region: COG2932 1089456008301 salt bridge; other site 1089456008302 sequence-specific DNA binding site [nucleotide binding]; other site 1089456008303 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 1089456008304 Catalytic site [active] 1089456008305 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 1089456008306 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1089456008307 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1089456008308 active site 1089456008309 metal binding site [ion binding]; metal-binding site 1089456008310 interdomain interaction site; other site 1089456008311 AAA domain; Region: AAA_25; pfam13481 1089456008312 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 1089456008313 Walker A motif; other site 1089456008314 ATP binding site [chemical binding]; other site 1089456008315 Walker B motif; other site 1089456008316 hypothetical protein; Provisional; Region: PRK09741 1089456008317 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1089456008318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1089456008319 Terminase-like family; Region: Terminase_6; pfam03237 1089456008320 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1089456008321 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1089456008322 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 1089456008323 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1089456008324 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1089456008325 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1089456008326 tape measure domain; Region: tape_meas_nterm; TIGR02675 1089456008327 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 1089456008328 Predicted chitinase [General function prediction only]; Region: COG3179 1089456008329 catalytic residue [active] 1089456008330 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 1089456008331 putative substrate binding pocket [chemical binding]; other site 1089456008332 trimer interface [polypeptide binding]; other site 1089456008333 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1089456008334 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1089456008335 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1089456008336 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1089456008337 Sulfatase; Region: Sulfatase; pfam00884 1089456008338 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1089456008339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1089456008340 Gram-negative porin; Region: Porin_4; pfam13609 1089456008341 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1089456008342 FIST N domain; Region: FIST; pfam08495 1089456008343 FIST C domain; Region: FIST_C; pfam10442 1089456008344 PAS fold; Region: PAS_7; pfam12860 1089456008345 PAS fold; Region: PAS_7; pfam12860 1089456008346 PAS fold; Region: PAS_4; pfam08448 1089456008347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456008348 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 1089456008349 dimer interface [polypeptide binding]; other site 1089456008350 phosphorylation site [posttranslational modification] 1089456008351 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456008352 ATP binding site [chemical binding]; other site 1089456008353 Mg2+ binding site [ion binding]; other site 1089456008354 G-X-G motif; other site 1089456008355 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456008356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456008357 active site 1089456008358 phosphorylation site [posttranslational modification] 1089456008359 intermolecular recognition site; other site 1089456008360 dimerization interface [polypeptide binding]; other site 1089456008361 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456008362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456008363 active site 1089456008364 phosphorylation site [posttranslational modification] 1089456008365 intermolecular recognition site; other site 1089456008366 dimerization interface [polypeptide binding]; other site 1089456008367 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 1089456008368 DNA binding residues [nucleotide binding] 1089456008369 dimerization interface [polypeptide binding]; other site 1089456008370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1089456008371 Histidine kinase; Region: HisKA_3; pfam07730 1089456008372 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456008373 ATP binding site [chemical binding]; other site 1089456008374 Mg2+ binding site [ion binding]; other site 1089456008375 G-X-G motif; other site 1089456008376 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456008377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456008378 active site 1089456008379 phosphorylation site [posttranslational modification] 1089456008380 intermolecular recognition site; other site 1089456008381 dimerization interface [polypeptide binding]; other site 1089456008382 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 1089456008383 DNA binding residues [nucleotide binding] 1089456008384 dimerization interface [polypeptide binding]; other site 1089456008385 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1089456008386 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1089456008387 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1089456008388 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1089456008389 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1089456008390 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1089456008391 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1089456008392 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1089456008393 dimer interface [polypeptide binding]; other site 1089456008394 Trp docking motif [polypeptide binding]; other site 1089456008395 active site 1089456008396 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456008397 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1089456008398 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1089456008399 NAD(P) binding site [chemical binding]; other site 1089456008400 catalytic residues [active] 1089456008401 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1089456008402 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1089456008403 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1089456008404 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1089456008405 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1089456008406 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1089456008407 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 1089456008408 FeS/SAM binding site; other site 1089456008409 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1089456008410 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1089456008411 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456008412 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1089456008413 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1089456008414 putative active site [active] 1089456008415 metal binding site [ion binding]; metal-binding site 1089456008416 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 1089456008417 PAS domain S-box; Region: sensory_box; TIGR00229 1089456008418 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1089456008419 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 1089456008420 dimer interface [polypeptide binding]; other site 1089456008421 phosphorylation site [posttranslational modification] 1089456008422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456008423 ATP binding site [chemical binding]; other site 1089456008424 G-X-G motif; other site 1089456008425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456008426 active site 1089456008427 phosphorylation site [posttranslational modification] 1089456008428 intermolecular recognition site; other site 1089456008429 major facilitator superfamily transporter; Provisional; Region: PRK05122 1089456008430 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456008431 putative substrate translocation pore; other site 1089456008432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3554 1089456008433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1089456008434 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1089456008435 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1089456008436 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1089456008437 acyl-activating enzyme (AAE) consensus motif; other site 1089456008438 putative AMP binding site [chemical binding]; other site 1089456008439 putative active site [active] 1089456008440 putative CoA binding site [chemical binding]; other site 1089456008441 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456008442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008443 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 1089456008444 putative dimerization interface [polypeptide binding]; other site 1089456008445 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1089456008446 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1089456008447 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1089456008448 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 1089456008449 dimer interface [polypeptide binding]; other site 1089456008450 active site 1089456008451 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1089456008452 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1089456008453 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1089456008454 NAD binding site [chemical binding]; other site 1089456008455 homotetramer interface [polypeptide binding]; other site 1089456008456 homodimer interface [polypeptide binding]; other site 1089456008457 substrate binding site [chemical binding]; other site 1089456008458 active site 1089456008459 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1089456008460 PAS domain; Region: PAS; smart00091 1089456008461 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1089456008462 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 1089456008463 Walker B motif; other site 1089456008464 arginine finger; other site 1089456008465 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456008466 benzoate transport; Region: 2A0115; TIGR00895 1089456008467 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456008468 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456008469 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 1089456008470 C-terminal domain interface [polypeptide binding]; other site 1089456008471 GSH binding site (G-site) [chemical binding]; other site 1089456008472 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1089456008473 putative dimer interface [polypeptide binding]; other site 1089456008474 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1089456008475 dimer interface [polypeptide binding]; other site 1089456008476 N-terminal domain interface [polypeptide binding]; other site 1089456008477 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1089456008478 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1089456008479 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1089456008480 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1089456008481 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1089456008482 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1089456008483 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1089456008484 Bacterial transcriptional regulator; Region: IclR; pfam01614 1089456008485 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1089456008486 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1089456008487 active site 1089456008488 catalytic residues [active] 1089456008489 metal binding site [ion binding]; metal-binding site 1089456008490 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1089456008491 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456008492 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456008493 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1089456008494 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 1089456008495 carboxyltransferase (CT) interaction site; other site 1089456008496 biotinylation site [posttranslational modification]; other site 1089456008497 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1089456008498 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 1089456008499 substrate binding site [chemical binding]; other site 1089456008500 oxyanion hole (OAH) forming residues; other site 1089456008501 trimer interface [polypeptide binding]; other site 1089456008502 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1089456008503 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1089456008504 isovaleryl-CoA dehydrogenase; Region: PLN02519 1089456008505 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1089456008506 substrate binding site [chemical binding]; other site 1089456008507 FAD binding site [chemical binding]; other site 1089456008508 catalytic base [active] 1089456008509 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1089456008510 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1089456008511 DNA binding residues [nucleotide binding] 1089456008512 putative dimer interface [polypeptide binding]; other site 1089456008513 SdiA-regulated; Region: SdiA-regulated; pfam06977 1089456008514 SdiA-regulated; Region: SdiA-regulated; cd09971 1089456008515 putative active site [active] 1089456008516 multidrug efflux protein; Reviewed; Region: PRK09577 1089456008517 Protein export membrane protein; Region: SecD_SecF; cl14618 1089456008518 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1089456008519 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456008520 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456008521 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456008522 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456008523 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 1089456008524 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1089456008525 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1089456008526 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1089456008527 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1089456008528 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1089456008529 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1089456008530 active site 1089456008531 tetramer interface; other site 1089456008532 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456008533 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 1089456008534 active site 1089456008535 metal binding site [ion binding]; metal-binding site 1089456008536 glutathione reductase; Validated; Region: PRK06116 1089456008537 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456008538 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456008539 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1089456008540 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1089456008541 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1089456008542 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456008543 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 1089456008544 putative DNA binding site [nucleotide binding]; other site 1089456008545 putative Zn2+ binding site [ion binding]; other site 1089456008546 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456008547 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 1089456008548 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 1089456008549 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456008550 DNA-binding site [nucleotide binding]; DNA binding site 1089456008551 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 1089456008552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456008553 homodimer interface [polypeptide binding]; other site 1089456008554 catalytic residue [active] 1089456008555 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1089456008556 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 1089456008557 FAD binding pocket [chemical binding]; other site 1089456008558 FAD binding motif [chemical binding]; other site 1089456008559 phosphate binding motif [ion binding]; other site 1089456008560 NAD binding pocket [chemical binding]; other site 1089456008561 thiamine pyrophosphate protein; Validated; Region: PRK08199 1089456008562 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1089456008563 PYR/PP interface [polypeptide binding]; other site 1089456008564 dimer interface [polypeptide binding]; other site 1089456008565 TPP binding site [chemical binding]; other site 1089456008566 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456008567 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 1089456008568 TPP-binding site [chemical binding]; other site 1089456008569 Predicted membrane protein [Function unknown]; Region: COG4392 1089456008570 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1089456008571 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1089456008572 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1089456008573 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456008574 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1089456008575 serine/threonine transporter SstT; Provisional; Region: PRK13628 1089456008576 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1089456008577 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1089456008578 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1089456008579 probable active site [active] 1089456008580 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1089456008581 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1089456008582 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1089456008583 Haemolytic domain; Region: Haemolytic; pfam01809 1089456008584 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1089456008585 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456008586 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456008587 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1089456008588 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1089456008589 metal binding site [ion binding]; metal-binding site 1089456008590 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1089456008591 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1089456008592 RNA polymerase sigma factor; Provisional; Region: PRK12525 1089456008593 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456008594 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 1089456008595 DNA binding residues [nucleotide binding] 1089456008596 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456008597 FecR protein; Region: FecR; pfam04773 1089456008598 cyanate hydratase; Validated; Region: PRK02866 1089456008599 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 1089456008600 oligomer interface [polypeptide binding]; other site 1089456008601 active site 1089456008602 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 1089456008603 active site clefts [active] 1089456008604 zinc binding site [ion binding]; other site 1089456008605 dimer interface [polypeptide binding]; other site 1089456008606 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1089456008607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008608 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 1089456008609 dimerization interface [polypeptide binding]; other site 1089456008610 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1089456008611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456008612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456008613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008614 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 1089456008615 putative effector binding pocket; other site 1089456008616 dimerization interface [polypeptide binding]; other site 1089456008617 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456008618 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 1089456008619 N-terminal plug; other site 1089456008620 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1089456008621 ligand-binding site [chemical binding]; other site 1089456008622 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1089456008623 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 1089456008624 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1089456008625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456008626 dimer interface [polypeptide binding]; other site 1089456008627 conserved gate region; other site 1089456008628 ABC-ATPase subunit interface; other site 1089456008629 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1089456008630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456008631 dimer interface [polypeptide binding]; other site 1089456008632 conserved gate region; other site 1089456008633 ABC-ATPase subunit interface; other site 1089456008634 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1089456008635 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1089456008636 Walker A/P-loop; other site 1089456008637 ATP binding site [chemical binding]; other site 1089456008638 Q-loop/lid; other site 1089456008639 ABC transporter signature motif; other site 1089456008640 Walker B; other site 1089456008641 D-loop; other site 1089456008642 H-loop/switch region; other site 1089456008643 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1089456008644 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1089456008645 Walker A/P-loop; other site 1089456008646 ATP binding site [chemical binding]; other site 1089456008647 Q-loop/lid; other site 1089456008648 ABC transporter signature motif; other site 1089456008649 Walker B; other site 1089456008650 D-loop; other site 1089456008651 H-loop/switch region; other site 1089456008652 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1089456008653 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 1089456008654 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1089456008655 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456008656 catalytic residue [active] 1089456008657 Uncharacterized conserved protein [Function unknown]; Region: COG3673 1089456008658 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: PcoB; COG3667 1089456008659 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1089456008660 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1089456008661 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1089456008662 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1089456008663 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1089456008664 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1089456008665 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 1089456008666 putative active site [active] 1089456008667 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1089456008668 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 1089456008669 motif II; other site 1089456008670 MFS_1 like family; Region: MFS_1_like; pfam12832 1089456008671 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1089456008672 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1089456008673 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1089456008674 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 1089456008675 N-terminal plug; other site 1089456008676 ligand-binding site [chemical binding]; other site 1089456008677 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1089456008678 elongation factor G; Reviewed; Region: PRK00007 1089456008679 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1089456008680 G1 box; other site 1089456008681 putative GEF interaction site [polypeptide binding]; other site 1089456008682 GTP/Mg2+ binding site [chemical binding]; other site 1089456008683 Switch I region; other site 1089456008684 G2 box; other site 1089456008685 G3 box; other site 1089456008686 Switch II region; other site 1089456008687 G4 box; other site 1089456008688 G5 box; other site 1089456008689 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 1089456008690 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 1089456008691 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 1089456008692 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 1089456008693 PAS domain S-box; Region: sensory_box; TIGR00229 1089456008694 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 1089456008695 putative active site [active] 1089456008696 heme pocket [chemical binding]; other site 1089456008697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456008698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456008699 metal binding site [ion binding]; metal-binding site 1089456008700 active site 1089456008701 I-site; other site 1089456008702 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 1089456008703 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1089456008704 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1089456008705 active site 1089456008706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456008707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008708 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 1089456008709 dimerization interface [polypeptide binding]; other site 1089456008710 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456008711 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1089456008712 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1089456008713 kynureninase; Region: kynureninase; TIGR01814 1089456008714 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456008715 catalytic residue [active] 1089456008716 arylformamidase; Region: trp_arylform; TIGR03035 1089456008717 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456008718 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 1089456008719 putative DNA binding site [nucleotide binding]; other site 1089456008720 putative Zn2+ binding site [ion binding]; other site 1089456008721 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456008722 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1089456008723 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 1089456008724 [2Fe-2S] cluster binding site [ion binding]; other site 1089456008725 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 1089456008726 putative alpha subunit interface [polypeptide binding]; other site 1089456008727 putative active site [active] 1089456008728 putative substrate binding site [chemical binding]; other site 1089456008729 Fe binding site [ion binding]; other site 1089456008730 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1089456008731 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 1089456008732 active site 1089456008733 dimer interface [polypeptide binding]; other site 1089456008734 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 1089456008735 Ligand Binding Site [chemical binding]; other site 1089456008736 Molecular Tunnel; other site 1089456008737 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 1089456008738 inter-subunit interface; other site 1089456008739 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456008740 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 1089456008741 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456008742 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1089456008743 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 1089456008744 N-terminal plug; other site 1089456008745 ligand-binding site [chemical binding]; other site 1089456008746 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 1089456008747 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 1089456008748 dimer interface [polypeptide binding]; other site 1089456008749 active site 1089456008750 non-prolyl cis peptide bond; other site 1089456008751 insertion regions; other site 1089456008752 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456008753 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1089456008754 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 1089456008755 RNA polymerase sigma factor; Provisional; Region: PRK12525 1089456008756 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456008757 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 1089456008758 DNA binding residues [nucleotide binding] 1089456008759 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456008760 FecR protein; Region: FecR; pfam04773 1089456008761 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456008762 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456008763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456008764 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1089456008765 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1089456008766 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1089456008767 short chain dehydrogenase; Provisional; Region: PRK08267 1089456008768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456008769 NAD(P) binding site [chemical binding]; other site 1089456008770 active site 1089456008771 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1089456008772 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1089456008773 PYR/PP interface [polypeptide binding]; other site 1089456008774 dimer interface [polypeptide binding]; other site 1089456008775 tetramer interface [polypeptide binding]; other site 1089456008776 TPP binding site [chemical binding]; other site 1089456008777 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456008778 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 1089456008779 TPP-binding site [chemical binding]; other site 1089456008780 Predicted outer membrane protein [Function unknown]; Region: COG3652 1089456008781 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1089456008782 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1089456008783 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1089456008784 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1089456008785 putative active site [active] 1089456008786 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456008787 benzoate transport; Region: 2A0115; TIGR00895 1089456008788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456008789 putative substrate translocation pore; other site 1089456008790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456008791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008792 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 1089456008793 dimerization interface [polypeptide binding]; other site 1089456008794 Uncharacterized conserved protein [Function unknown]; Region: COG4336 1089456008795 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1089456008796 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1089456008797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456008798 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 1089456008799 DNA binding site [nucleotide binding] 1089456008800 active site 1089456008801 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1089456008802 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1089456008803 SnoaL-like domain; Region: SnoaL_2; pfam12680 1089456008804 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1089456008805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008806 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 1089456008807 substrate binding pocket [chemical binding]; other site 1089456008808 dimerization interface [polypeptide binding]; other site 1089456008809 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1089456008810 hydrophobic ligand binding site; other site 1089456008811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456008812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456008813 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 1089456008814 putative effector binding pocket; other site 1089456008815 dimerization interface [polypeptide binding]; other site 1089456008816 choline dehydrogenase; Validated; Region: PRK02106 1089456008817 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456008818 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1089456008819 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1089456008820 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 1089456008821 NAD(P) binding site [chemical binding]; other site 1089456008822 catalytic residues [active] 1089456008823 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1089456008824 ParB-like nuclease domain; Region: ParBc; pfam02195 1089456008825 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1089456008826 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 1089456008827 Active Sites [active] 1089456008828 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1089456008829 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1089456008830 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1089456008831 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1089456008832 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1089456008833 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1089456008834 PapC N-terminal domain; Region: PapC_N; pfam13954 1089456008835 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1089456008836 PapC C-terminal domain; Region: PapC_C; pfam13953 1089456008837 Fimbrial protein; Region: Fimbrial; cl01416 1089456008838 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1089456008839 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1089456008840 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1089456008841 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 1089456008842 Predicted outer membrane protein [Function unknown]; Region: COG3652 1089456008843 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1089456008844 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1089456008845 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1089456008846 Predicted membrane protein [Function unknown]; Region: COG2323 1089456008847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1089456008848 active site 1089456008849 phosphorylation site [posttranslational modification] 1089456008850 intermolecular recognition site; other site 1089456008851 dimerization interface [polypeptide binding]; other site 1089456008852 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1089456008853 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1089456008854 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1089456008855 active site 1089456008856 DNA binding site [nucleotide binding] 1089456008857 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 1089456008858 DNA binding site [nucleotide binding] 1089456008859 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 1089456008860 nucleotide binding site [chemical binding]; other site 1089456008861 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 1089456008862 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1089456008863 short chain dehydrogenase; Provisional; Region: PRK06701 1089456008864 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1089456008865 NAD binding site [chemical binding]; other site 1089456008866 metal binding site [ion binding]; metal-binding site 1089456008867 active site 1089456008868 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 1089456008869 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 1089456008870 homodimer interface [polypeptide binding]; other site 1089456008871 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1089456008872 active site pocket [active] 1089456008873 General stress protein [General function prediction only]; Region: GsiB; COG3729 1089456008874 hydroperoxidase II; Provisional; Region: katE; PRK11249 1089456008875 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1089456008876 tetramer interface [polypeptide binding]; other site 1089456008877 heme binding pocket [chemical binding]; other site 1089456008878 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1089456008879 domain interactions; other site 1089456008880 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1089456008881 MgtC family; Region: MgtC; pfam02308 1089456008882 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1089456008883 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 1089456008884 putative DNA binding site [nucleotide binding]; other site 1089456008885 putative homodimer interface [polypeptide binding]; other site 1089456008886 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1089456008887 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1089456008888 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1089456008889 active site 1089456008890 homodimer interface [polypeptide binding]; other site 1089456008891 catalytic site [active] 1089456008892 acceptor binding site [chemical binding]; other site 1089456008893 trehalose synthase; Region: treS_nterm; TIGR02456 1089456008894 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1089456008895 active site 1089456008896 catalytic site [active] 1089456008897 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1089456008898 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1089456008899 glycogen branching enzyme; Provisional; Region: PRK05402 1089456008900 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1089456008901 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1089456008902 active site 1089456008903 catalytic site [active] 1089456008904 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1089456008905 Predicted integral membrane protein [Function unknown]; Region: COG0392 1089456008906 cardiolipin synthase 2; Provisional; Region: PRK11263 1089456008907 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1089456008908 putative active site [active] 1089456008909 catalytic site [active] 1089456008910 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456008911 putative active site [active] 1089456008912 catalytic site [active] 1089456008913 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1089456008914 putative catalytic site [active] 1089456008915 putative metal binding site [ion binding]; other site 1089456008916 putative phosphate binding site [ion binding]; other site 1089456008917 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1089456008918 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1089456008919 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1089456008920 NAD binding site [chemical binding]; other site 1089456008921 catalytic Zn binding site [ion binding]; other site 1089456008922 structural Zn binding site [ion binding]; other site 1089456008923 FOG: CBS domain [General function prediction only]; Region: COG0517 1089456008924 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 1089456008925 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1089456008926 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 1089456008927 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1089456008928 active site 1089456008929 catalytic site [active] 1089456008930 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1089456008931 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1089456008932 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1089456008933 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1089456008934 active site 1089456008935 catalytic site [active] 1089456008936 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1089456008937 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 1089456008938 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1089456008939 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1089456008940 catalytic site [active] 1089456008941 active site 1089456008942 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1089456008943 glycogen synthase; Provisional; Region: glgA; PRK00654 1089456008944 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 1089456008945 ADP-binding pocket [chemical binding]; other site 1089456008946 homodimer interface [polypeptide binding]; other site 1089456008947 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1089456008948 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1089456008949 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1089456008950 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456008951 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1089456008952 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1089456008953 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1089456008954 metal binding site [ion binding]; metal-binding site 1089456008955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456008956 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 1089456008957 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1089456008958 putative active site [active] 1089456008959 heme pocket [chemical binding]; other site 1089456008960 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1089456008961 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 1089456008962 putative active site [active] 1089456008963 heme pocket [chemical binding]; other site 1089456008964 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 1089456008965 dimer interface [polypeptide binding]; other site 1089456008966 phosphorylation site [posttranslational modification] 1089456008967 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456008968 ATP binding site [chemical binding]; other site 1089456008969 Mg2+ binding site [ion binding]; other site 1089456008970 G-X-G motif; other site 1089456008971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456008972 active site 1089456008973 phosphorylation site [posttranslational modification] 1089456008974 intermolecular recognition site; other site 1089456008975 dimerization interface [polypeptide binding]; other site 1089456008976 Yip1 domain; Region: Yip1; cl17815 1089456008977 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1089456008978 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 1089456008979 S-adenosylmethionine binding site [chemical binding]; other site 1089456008980 carboxylate-amine ligase; Provisional; Region: PRK13515 1089456008981 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1089456008982 Low affinity iron permease; Region: Iron_permease; pfam04120 1089456008983 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1089456008984 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1089456008985 active site 1089456008986 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 1089456008987 FOG: CBS domain [General function prediction only]; Region: COG0517 1089456008988 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 1089456008989 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1089456008990 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 1089456008991 catalytic loop [active] 1089456008992 iron binding site [ion binding]; other site 1089456008993 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1089456008994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456008995 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1089456008996 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456008997 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1089456008998 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456008999 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456009000 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1089456009001 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1089456009002 NAD(P) binding site [chemical binding]; other site 1089456009003 substrate binding site [chemical binding]; other site 1089456009004 dimer interface [polypeptide binding]; other site 1089456009005 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1089456009006 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1089456009007 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1089456009008 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 1089456009009 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 1089456009010 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456009011 dimer interface [polypeptide binding]; other site 1089456009012 conserved gate region; other site 1089456009013 putative PBP binding loops; other site 1089456009014 ABC-ATPase subunit interface; other site 1089456009015 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456009016 dimer interface [polypeptide binding]; other site 1089456009017 conserved gate region; other site 1089456009018 putative PBP binding loops; other site 1089456009019 ABC-ATPase subunit interface; other site 1089456009020 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456009021 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 1089456009022 substrate binding pocket [chemical binding]; other site 1089456009023 membrane-bound complex binding site; other site 1089456009024 hinge residues; other site 1089456009025 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456009026 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009027 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 1089456009028 dimerization interface [polypeptide binding]; other site 1089456009029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1089456009030 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1089456009031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1089456009032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456009033 D-galactonate transporter; Region: 2A0114; TIGR00893 1089456009034 putative substrate translocation pore; other site 1089456009035 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1089456009036 Amidohydrolase; Region: Amidohydro_2; pfam04909 1089456009037 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1089456009038 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1089456009039 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456009040 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1089456009041 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456009042 putative substrate translocation pore; other site 1089456009043 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1089456009044 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 1089456009045 putative active site pocket [active] 1089456009046 putative metal binding site [ion binding]; other site 1089456009047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1089456009048 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1089456009049 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1089456009050 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1089456009051 dimer interface [polypeptide binding]; other site 1089456009052 NADP binding site [chemical binding]; other site 1089456009053 catalytic residues [active] 1089456009054 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1089456009055 Paraquat-inducible protein A; Region: PqiA; pfam04403 1089456009056 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1089456009057 mce related protein; Region: MCE; pfam02470 1089456009058 mce related protein; Region: MCE; pfam02470 1089456009059 mce related protein; Region: MCE; pfam02470 1089456009060 mce related protein; Region: MCE; pfam02470 1089456009061 mce related protein; Region: MCE; pfam02470 1089456009062 mce related protein; Region: MCE; pfam02470 1089456009063 Propionate catabolism activator; Region: PrpR_N; pfam06506 1089456009064 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 1089456009065 PAS domain; Region: PAS_9; pfam13426 1089456009066 putative active site [active] 1089456009067 heme pocket [chemical binding]; other site 1089456009068 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1089456009069 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 1089456009070 Walker A motif; other site 1089456009071 ATP binding site [chemical binding]; other site 1089456009072 Walker B motif; other site 1089456009073 arginine finger; other site 1089456009074 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456009075 Phosphotransferase enzyme family; Region: APH; pfam01636 1089456009076 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 1089456009077 putative active site [active] 1089456009078 putative substrate binding site [chemical binding]; other site 1089456009079 ATP binding site [chemical binding]; other site 1089456009080 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456009081 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1089456009082 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1089456009083 active site 1089456009084 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456009085 classical (c) SDRs; Region: SDR_c; cd05233 1089456009086 NAD(P) binding site [chemical binding]; other site 1089456009087 active site 1089456009088 acyl-CoA synthetase; Validated; Region: PRK08162 1089456009089 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1089456009090 acyl-activating enzyme (AAE) consensus motif; other site 1089456009091 putative active site [active] 1089456009092 AMP binding site [chemical binding]; other site 1089456009093 putative CoA binding site [chemical binding]; other site 1089456009094 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1089456009095 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1089456009096 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1089456009097 Na binding site [ion binding]; other site 1089456009098 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1089456009099 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1089456009100 NAD binding site [chemical binding]; other site 1089456009101 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1089456009102 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 1089456009103 inhibitor-cofactor binding pocket; inhibition site 1089456009104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456009105 catalytic residue [active] 1089456009106 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1089456009107 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1089456009108 tetrameric interface [polypeptide binding]; other site 1089456009109 NAD binding site [chemical binding]; other site 1089456009110 catalytic residues [active] 1089456009111 substrate binding site [chemical binding]; other site 1089456009112 amino acid transporter; Region: 2A0306; TIGR00909 1089456009113 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1089456009114 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1089456009115 active site 1089456009116 NAD binding site [chemical binding]; other site 1089456009117 metal binding site [ion binding]; metal-binding site 1089456009118 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456009119 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1089456009120 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1089456009121 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1089456009122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456009123 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1089456009124 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456009125 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456009126 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1089456009127 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1089456009128 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1089456009129 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1089456009130 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1089456009131 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1089456009132 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1089456009133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1089456009134 HTH-like domain; Region: HTH_21; pfam13276 1089456009135 Integrase core domain; Region: rve; pfam00665 1089456009136 Integrase core domain; Region: rve_3; pfam13683 1089456009137 Transposase; Region: HTH_Tnp_1; pfam01527 1089456009138 HTH-like domain; Region: HTH_21; pfam13276 1089456009139 Integrase core domain; Region: rve; pfam00665 1089456009140 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1089456009141 Integrase core domain; Region: rve_3; pfam13683 1089456009142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1089456009143 Transposase; Region: HTH_Tnp_1; pfam01527 1089456009144 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1089456009145 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1089456009146 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1089456009147 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1089456009148 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1089456009149 classical (c) SDRs; Region: SDR_c; cd05233 1089456009150 NAD(P) binding site [chemical binding]; other site 1089456009151 active site 1089456009152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1089456009153 MOSC domain; Region: MOSC; pfam03473 1089456009154 3-alpha domain; Region: 3-alpha; pfam03475 1089456009155 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 1089456009156 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456009157 catalytic residue [active] 1089456009158 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1089456009159 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1089456009160 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1089456009161 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1089456009162 Substrate binding site; other site 1089456009163 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1089456009164 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1089456009165 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 1089456009166 active site 1089456009167 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1089456009168 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1089456009169 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1089456009170 Chain length determinant protein; Region: Wzz; cl15801 1089456009171 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 1089456009172 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456009173 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 1089456009174 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 1089456009175 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 1089456009176 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1089456009177 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456009178 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 1089456009179 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1089456009180 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1089456009181 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1089456009182 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1089456009183 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1089456009184 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1089456009185 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 1089456009186 active site 1089456009187 DNA binding site [nucleotide binding] 1089456009188 Int/Topo IB signature motif; other site 1089456009189 catalytic residues [active] 1089456009190 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456009191 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 1089456009192 putative DNA binding site [nucleotide binding]; other site 1089456009193 putative Zn2+ binding site [ion binding]; other site 1089456009194 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456009195 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1089456009196 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1089456009197 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 1089456009198 tetramer interface [polypeptide binding]; other site 1089456009199 TPP-binding site [chemical binding]; other site 1089456009200 heterodimer interface [polypeptide binding]; other site 1089456009201 phosphorylation loop region [posttranslational modification] 1089456009202 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1089456009203 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 1089456009204 alpha subunit interface [polypeptide binding]; other site 1089456009205 TPP binding site [chemical binding]; other site 1089456009206 heterodimer interface [polypeptide binding]; other site 1089456009207 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1089456009208 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1089456009209 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 1089456009210 E3 interaction surface; other site 1089456009211 lipoyl attachment site [posttranslational modification]; other site 1089456009212 e3 binding domain; Region: E3_binding; pfam02817 1089456009213 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1089456009214 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1089456009215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456009216 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1089456009217 Helix-turn-helix domain; Region: HTH_19; pfam12844 1089456009218 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1089456009219 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1089456009220 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1089456009221 active site 1089456009222 homodimer interface [polypeptide binding]; other site 1089456009223 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 1089456009224 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 1089456009225 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1089456009226 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 1089456009227 substrate binding pocket [chemical binding]; other site 1089456009228 active site 1089456009229 iron coordination sites [ion binding]; other site 1089456009230 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 1089456009231 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1089456009232 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1089456009233 Cytochrome c; Region: Cytochrom_C; cl11414 1089456009234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456009235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009236 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 1089456009237 putative effector binding pocket; other site 1089456009238 dimerization interface [polypeptide binding]; other site 1089456009239 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1089456009240 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1089456009241 DNA binding site [nucleotide binding] 1089456009242 domain linker motif; other site 1089456009243 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1089456009244 putative dimerization interface [polypeptide binding]; other site 1089456009245 putative ligand binding site [chemical binding]; other site 1089456009246 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1089456009247 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 1089456009248 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1089456009249 substrate binding site [chemical binding]; other site 1089456009250 ATP binding site [chemical binding]; other site 1089456009251 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456009252 D-galactonate transporter; Region: 2A0114; TIGR00893 1089456009253 putative substrate translocation pore; other site 1089456009254 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1089456009255 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1089456009256 dimerization interface [polypeptide binding]; other site 1089456009257 ligand binding site [chemical binding]; other site 1089456009258 NADP binding site [chemical binding]; other site 1089456009259 catalytic site [active] 1089456009260 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1089456009261 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1089456009262 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1089456009263 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456009264 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456009265 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456009266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456009267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009268 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 1089456009269 dimerization interface [polypeptide binding]; other site 1089456009270 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1089456009271 conserved cys residue [active] 1089456009272 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1089456009273 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456009274 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456009275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456009276 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456009277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456009278 Coenzyme A binding pocket [chemical binding]; other site 1089456009279 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1089456009280 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1089456009281 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1089456009282 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1089456009283 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1089456009284 DNA binding residues [nucleotide binding] 1089456009285 dimer interface [polypeptide binding]; other site 1089456009286 [2Fe-2S] cluster binding site [ion binding]; other site 1089456009287 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1089456009288 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1089456009289 putative NAD(P) binding site [chemical binding]; other site 1089456009290 putative substrate binding site [chemical binding]; other site 1089456009291 catalytic Zn binding site [ion binding]; other site 1089456009292 structural Zn binding site [ion binding]; other site 1089456009293 dimer interface [polypeptide binding]; other site 1089456009294 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1089456009295 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456009296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456009297 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 1089456009298 dimerization interface [polypeptide binding]; other site 1089456009299 putative DNA binding site [nucleotide binding]; other site 1089456009300 putative Zn2+ binding site [ion binding]; other site 1089456009301 arsenical pump membrane protein; Provisional; Region: PRK15445 1089456009302 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 1089456009303 transmembrane helices; other site 1089456009304 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1089456009305 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1089456009306 active site 1089456009307 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1089456009308 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456009309 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456009310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456009311 Peptidase family M48; Region: Peptidase_M48; cl12018 1089456009312 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1089456009313 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1089456009314 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 1089456009315 N-terminal plug; other site 1089456009316 ligand-binding site [chemical binding]; other site 1089456009317 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1089456009318 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1089456009319 Trp docking motif [polypeptide binding]; other site 1089456009320 putative active site [active] 1089456009321 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1089456009322 Protein of unknown function (DUF971); Region: DUF971; cl01414 1089456009323 HEAT repeats; Region: HEAT_2; pfam13646 1089456009324 HEAT repeats; Region: HEAT_2; pfam13646 1089456009325 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1089456009326 putative oxidoreductase; Provisional; Region: PRK08275 1089456009327 L-aspartate oxidase; Provisional; Region: PRK06175 1089456009328 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1089456009329 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1089456009330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456009331 DNA-binding site [nucleotide binding]; DNA binding site 1089456009332 UTRA domain; Region: UTRA; pfam07702 1089456009333 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 1089456009334 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 1089456009335 putative active site [active] 1089456009336 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1089456009337 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 1089456009338 Interdomain contacts; other site 1089456009339 Cytokine receptor motif; other site 1089456009340 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 1089456009341 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 1089456009342 putative deacylase active site [active] 1089456009343 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009344 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1089456009345 acyl-activating enzyme (AAE) consensus motif; other site 1089456009346 AMP binding site [chemical binding]; other site 1089456009347 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1089456009348 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456009349 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009350 Condensation domain; Region: Condensation; pfam00668 1089456009351 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456009352 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1089456009353 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1089456009354 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1089456009355 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456009356 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1089456009357 acyl-activating enzyme (AAE) consensus motif; other site 1089456009358 AMP binding site [chemical binding]; other site 1089456009359 active site 1089456009360 CoA binding site [chemical binding]; other site 1089456009361 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009362 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456009363 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456009364 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1089456009365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456009366 putative PBP binding loops; other site 1089456009367 ABC-ATPase subunit interface; other site 1089456009368 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1089456009369 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1089456009370 Walker A/P-loop; other site 1089456009371 ATP binding site [chemical binding]; other site 1089456009372 Q-loop/lid; other site 1089456009373 ABC transporter signature motif; other site 1089456009374 Walker B; other site 1089456009375 D-loop; other site 1089456009376 H-loop/switch region; other site 1089456009377 NMT1-like family; Region: NMT1_2; pfam13379 1089456009378 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1089456009379 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1089456009380 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 1089456009381 active site 1089456009382 iron coordination sites [ion binding]; other site 1089456009383 substrate binding pocket [chemical binding]; other site 1089456009384 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 1089456009385 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1089456009386 non-specific DNA binding site [nucleotide binding]; other site 1089456009387 salt bridge; other site 1089456009388 sequence-specific DNA binding site [nucleotide binding]; other site 1089456009389 Cupin domain; Region: Cupin_2; pfam07883 1089456009390 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1089456009391 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1089456009392 Beta-lactamase; Region: Beta-lactamase; pfam00144 1089456009393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456009394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009395 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 1089456009396 putative dimerization interface [polypeptide binding]; other site 1089456009397 putative effector binding pocket; other site 1089456009398 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456009399 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456009400 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1089456009401 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1089456009402 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1089456009403 DNA binding site [nucleotide binding] 1089456009404 domain linker motif; other site 1089456009405 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 1089456009406 putative ligand binding site [chemical binding]; other site 1089456009407 putative dimerization interface [polypeptide binding]; other site 1089456009408 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 1089456009409 AAA domain; Region: AAA_33; pfam13671 1089456009410 ATP-binding site [chemical binding]; other site 1089456009411 Gluconate-6-phosphate binding site [chemical binding]; other site 1089456009412 GntP family permease; Region: GntP_permease; pfam02447 1089456009413 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1089456009414 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1089456009415 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1089456009416 tetrameric interface [polypeptide binding]; other site 1089456009417 activator binding site; other site 1089456009418 NADP binding site [chemical binding]; other site 1089456009419 substrate binding site [chemical binding]; other site 1089456009420 catalytic residues [active] 1089456009421 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1089456009422 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1089456009423 Flavin binding site [chemical binding]; other site 1089456009424 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1089456009425 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1089456009426 Flavin binding site [chemical binding]; other site 1089456009427 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1089456009428 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 1089456009429 active site 1089456009430 non-prolyl cis peptide bond; other site 1089456009431 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1089456009432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456009433 dimer interface [polypeptide binding]; other site 1089456009434 conserved gate region; other site 1089456009435 putative PBP binding loops; other site 1089456009436 ABC-ATPase subunit interface; other site 1089456009437 NMT1-like family; Region: NMT1_2; pfam13379 1089456009438 NMT1/THI5 like; Region: NMT1; pfam09084 1089456009439 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1089456009440 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1089456009441 Walker A/P-loop; other site 1089456009442 ATP binding site [chemical binding]; other site 1089456009443 Q-loop/lid; other site 1089456009444 ABC transporter signature motif; other site 1089456009445 Walker B; other site 1089456009446 D-loop; other site 1089456009447 H-loop/switch region; other site 1089456009448 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456009449 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456009450 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1089456009451 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1089456009452 Cupin; Region: Cupin_6; pfam12852 1089456009453 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456009454 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456009455 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456009456 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456009457 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456009458 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1089456009459 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1089456009460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456009461 dimer interface [polypeptide binding]; other site 1089456009462 conserved gate region; other site 1089456009463 putative PBP binding loops; other site 1089456009464 ABC-ATPase subunit interface; other site 1089456009465 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1089456009466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456009467 dimer interface [polypeptide binding]; other site 1089456009468 conserved gate region; other site 1089456009469 ABC-ATPase subunit interface; other site 1089456009470 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1089456009471 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1089456009472 Walker A/P-loop; other site 1089456009473 ATP binding site [chemical binding]; other site 1089456009474 Q-loop/lid; other site 1089456009475 ABC transporter signature motif; other site 1089456009476 Walker B; other site 1089456009477 D-loop; other site 1089456009478 H-loop/switch region; other site 1089456009479 TOBE domain; Region: TOBE_2; pfam08402 1089456009480 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1089456009481 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1089456009482 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1089456009483 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 1089456009484 N- and C-terminal domain interface [polypeptide binding]; other site 1089456009485 D-xylulose kinase; Region: XylB; TIGR01312 1089456009486 active site 1089456009487 MgATP binding site [chemical binding]; other site 1089456009488 catalytic site [active] 1089456009489 metal binding site [ion binding]; metal-binding site 1089456009490 xylulose binding site [chemical binding]; other site 1089456009491 putative homodimer interface [polypeptide binding]; other site 1089456009492 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 1089456009493 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1089456009494 putative substrate binding site [chemical binding]; other site 1089456009495 putative ATP binding site [chemical binding]; other site 1089456009496 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1089456009497 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1089456009498 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456009499 active site 1089456009500 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1089456009501 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456009502 active site 1089456009503 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1089456009504 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 1089456009505 active site 1089456009506 non-prolyl cis peptide bond; other site 1089456009507 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1089456009508 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1089456009509 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1089456009510 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1089456009511 Walker A/P-loop; other site 1089456009512 ATP binding site [chemical binding]; other site 1089456009513 Q-loop/lid; other site 1089456009514 ABC transporter signature motif; other site 1089456009515 Walker B; other site 1089456009516 D-loop; other site 1089456009517 H-loop/switch region; other site 1089456009518 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 1089456009519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456009520 dimer interface [polypeptide binding]; other site 1089456009521 conserved gate region; other site 1089456009522 ABC-ATPase subunit interface; other site 1089456009523 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1089456009524 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 1089456009525 active site 1089456009526 catalytic site [active] 1089456009527 metal binding site [ion binding]; metal-binding site 1089456009528 Predicted ATPase [General function prediction only]; Region: COG1485 1089456009529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456009530 Walker B; other site 1089456009531 D-loop; other site 1089456009532 H-loop/switch region; other site 1089456009533 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1089456009534 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 1089456009535 Walker A motif; other site 1089456009536 ATP binding site [chemical binding]; other site 1089456009537 Walker B motif; other site 1089456009538 arginine finger; other site 1089456009539 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1089456009540 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1089456009541 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1089456009542 Flavin binding site [chemical binding]; other site 1089456009543 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1089456009544 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 1089456009545 active site 1089456009546 dimer interface [polypeptide binding]; other site 1089456009547 non-prolyl cis peptide bond; other site 1089456009548 insertion regions; other site 1089456009549 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 1089456009550 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456009551 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1089456009552 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 1089456009553 Walker A motif; other site 1089456009554 ATP binding site [chemical binding]; other site 1089456009555 Walker B motif; other site 1089456009556 arginine finger; other site 1089456009557 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1089456009558 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1089456009559 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1089456009560 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1089456009561 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1089456009562 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 1089456009563 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1089456009564 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1089456009565 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1089456009566 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1089456009567 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 1089456009568 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1089456009569 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1089456009570 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1089456009571 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1089456009572 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1089456009573 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 1089456009574 Walker A motif; other site 1089456009575 ATP binding site [chemical binding]; other site 1089456009576 Walker B motif; other site 1089456009577 arginine finger; other site 1089456009578 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 1089456009579 Walker A motif; other site 1089456009580 ATP binding site [chemical binding]; other site 1089456009581 Walker B motif; other site 1089456009582 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1089456009583 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456009584 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456009585 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1089456009586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1089456009587 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 1089456009588 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456009589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456009590 active site 1089456009591 phosphorylation site [posttranslational modification] 1089456009592 intermolecular recognition site; other site 1089456009593 dimerization interface [polypeptide binding]; other site 1089456009594 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 1089456009595 DNA binding residues [nucleotide binding] 1089456009596 dimerization interface [polypeptide binding]; other site 1089456009597 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1089456009598 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1089456009599 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456009600 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1089456009601 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456009602 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1089456009603 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1089456009604 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 1089456009605 catalytic loop [active] 1089456009606 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 1089456009607 iron binding site [ion binding]; other site 1089456009608 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1089456009609 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1089456009610 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 1089456009611 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1089456009612 phosphate binding site [ion binding]; other site 1089456009613 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456009614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009615 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 1089456009616 dimerization interface [polypeptide binding]; other site 1089456009617 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1089456009618 Penicillin amidase; Region: Penicil_amidase; pfam01804 1089456009619 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 1089456009620 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 1089456009621 active site 1089456009622 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 1089456009623 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1089456009624 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456009625 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456009626 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1089456009627 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1089456009628 Walker A/P-loop; other site 1089456009629 ATP binding site [chemical binding]; other site 1089456009630 Q-loop/lid; other site 1089456009631 ABC transporter signature motif; other site 1089456009632 Walker B; other site 1089456009633 D-loop; other site 1089456009634 H-loop/switch region; other site 1089456009635 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1089456009636 FtsX-like permease family; Region: FtsX; pfam02687 1089456009637 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456009638 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1089456009639 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 1089456009640 active site 1089456009641 dimer interface [polypeptide binding]; other site 1089456009642 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1089456009643 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 1089456009644 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456009645 catalytic residue [active] 1089456009646 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1089456009647 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1089456009648 peptide synthase; Provisional; Region: PRK12467 1089456009649 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456009650 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1089456009651 acyl-activating enzyme (AAE) consensus motif; other site 1089456009652 AMP binding site [chemical binding]; other site 1089456009653 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009654 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456009655 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009656 acyl-activating enzyme (AAE) consensus motif; other site 1089456009657 AMP binding site [chemical binding]; other site 1089456009658 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009659 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1089456009660 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009661 acyl-activating enzyme (AAE) consensus motif; other site 1089456009662 AMP binding site [chemical binding]; other site 1089456009663 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009664 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456009665 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009666 acyl-activating enzyme (AAE) consensus motif; other site 1089456009667 AMP binding site [chemical binding]; other site 1089456009668 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009669 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1089456009670 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009671 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1089456009672 acyl-activating enzyme (AAE) consensus motif; other site 1089456009673 AMP binding site [chemical binding]; other site 1089456009674 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009675 Condensation domain; Region: Condensation; pfam00668 1089456009676 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456009677 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1089456009678 Condensation domain; Region: Condensation; pfam00668 1089456009679 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456009680 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009681 acyl-activating enzyme (AAE) consensus motif; other site 1089456009682 AMP binding site [chemical binding]; other site 1089456009683 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009684 Condensation domain; Region: Condensation; pfam00668 1089456009685 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456009686 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1089456009687 Condensation domain; Region: Condensation; pfam00668 1089456009688 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456009689 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009690 acyl-activating enzyme (AAE) consensus motif; other site 1089456009691 AMP binding site [chemical binding]; other site 1089456009692 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009693 Condensation domain; Region: Condensation; pfam00668 1089456009694 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456009695 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456009696 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 1089456009697 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1089456009698 intersubunit interface [polypeptide binding]; other site 1089456009699 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1089456009700 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456009701 Walker A/P-loop; other site 1089456009702 ATP binding site [chemical binding]; other site 1089456009703 Q-loop/lid; other site 1089456009704 ABC transporter signature motif; other site 1089456009705 Walker B; other site 1089456009706 D-loop; other site 1089456009707 H-loop/switch region; other site 1089456009708 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1089456009709 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 1089456009710 ABC-ATPase subunit interface; other site 1089456009711 dimer interface [polypeptide binding]; other site 1089456009712 putative PBP binding regions; other site 1089456009713 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 1089456009714 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1089456009715 Serine hydrolase; Region: Ser_hydrolase; cl17834 1089456009716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1089456009717 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1089456009718 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 1089456009719 inhibitor-cofactor binding pocket; inhibition site 1089456009720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456009721 catalytic residue [active] 1089456009722 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1089456009723 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1089456009724 trehalase; Provisional; Region: treA; PRK13272 1089456009725 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1089456009726 LysR family transcriptional regulator; Provisional; Region: PRK14997 1089456009727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009728 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 1089456009729 putative effector binding pocket; other site 1089456009730 putative dimerization interface [polypeptide binding]; other site 1089456009731 Pirin-related protein [General function prediction only]; Region: COG1741 1089456009732 Pirin; Region: Pirin; pfam02678 1089456009733 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1089456009734 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456009735 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 1089456009736 catalytic triad [active] 1089456009737 dimer interface [polypeptide binding]; other site 1089456009738 conserved cis-peptide bond; other site 1089456009739 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456009740 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1089456009741 Prophage antirepressor [Transcription]; Region: COG3617 1089456009742 BRO family, N-terminal domain; Region: Bro-N; smart01040 1089456009743 peptide synthase; Validated; Region: PRK05691 1089456009744 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1089456009745 acyl-activating enzyme (AAE) consensus motif; other site 1089456009746 active site 1089456009747 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009748 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456009749 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009750 acyl-activating enzyme (AAE) consensus motif; other site 1089456009751 AMP binding site [chemical binding]; other site 1089456009752 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009753 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456009754 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009755 acyl-activating enzyme (AAE) consensus motif; other site 1089456009756 AMP binding site [chemical binding]; other site 1089456009757 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009758 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1089456009759 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456009760 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456009761 acyl-activating enzyme (AAE) consensus motif; other site 1089456009762 AMP binding site [chemical binding]; other site 1089456009763 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456009764 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1089456009765 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1089456009766 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456009767 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 1089456009768 DNA binding residues [nucleotide binding] 1089456009769 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1089456009770 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1089456009771 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456009772 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456009773 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 1089456009774 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1089456009775 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1089456009776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456009777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009778 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 1089456009779 putative effector binding pocket; other site 1089456009780 dimerization interface [polypeptide binding]; other site 1089456009781 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1089456009782 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1089456009783 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 1089456009784 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 1089456009785 HflC protein; Region: hflC; TIGR01932 1089456009786 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 1089456009787 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 1089456009788 putative active site [active] 1089456009789 '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 1089456009790 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1089456009791 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1089456009792 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1089456009793 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1089456009794 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1089456009795 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1089456009796 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 1089456009797 dimer interface [polypeptide binding]; other site 1089456009798 active site 1089456009799 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1089456009800 folate binding site [chemical binding]; other site 1089456009801 glycine dehydrogenase; Provisional; Region: PRK05367 1089456009802 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 1089456009803 tetramer interface [polypeptide binding]; other site 1089456009804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456009805 catalytic residue [active] 1089456009806 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 1089456009807 tetramer interface [polypeptide binding]; other site 1089456009808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456009809 catalytic residue [active] 1089456009810 glycine cleavage system protein H; Provisional; Region: PRK13380 1089456009811 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 1089456009812 lipoyl attachment site [posttranslational modification]; other site 1089456009813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456009814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009815 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 1089456009816 dimerization interface [polypeptide binding]; other site 1089456009817 putative effector binding pocket; other site 1089456009818 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1089456009819 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 1089456009820 active site 1089456009821 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1089456009822 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1089456009823 putative aromatic amino acid binding site; other site 1089456009824 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 1089456009825 Walker A motif; other site 1089456009826 ATP binding site [chemical binding]; other site 1089456009827 Walker B motif; other site 1089456009828 arginine finger; other site 1089456009829 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1089456009830 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1089456009831 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1089456009832 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1089456009833 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456009834 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 1089456009835 S-adenosylmethionine binding site [chemical binding]; other site 1089456009836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456009837 Coenzyme A binding pocket [chemical binding]; other site 1089456009838 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456009839 RHS Repeat; Region: RHS_repeat; pfam05593 1089456009840 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456009841 RHS Repeat; Region: RHS_repeat; pfam05593 1089456009842 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456009843 RHS Repeat; Region: RHS_repeat; pfam05593 1089456009844 RHS Repeat; Region: RHS_repeat; pfam05593 1089456009845 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456009846 RHS Repeat; Region: RHS_repeat; pfam05593 1089456009847 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1089456009848 RHS Repeat; Region: RHS_repeat; pfam05593 1089456009849 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1089456009850 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1089456009851 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1089456009852 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1089456009853 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 1089456009854 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1089456009855 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1089456009856 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1089456009857 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1089456009858 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1089456009859 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456009860 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1089456009861 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 1089456009862 N-terminal plug; other site 1089456009863 ligand-binding site [chemical binding]; other site 1089456009864 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456009865 FecR protein; Region: FecR; pfam04773 1089456009866 RNA polymerase sigma factor; Provisional; Region: PRK12528 1089456009867 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456009868 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 1089456009869 DNA binding residues [nucleotide binding] 1089456009870 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009871 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1089456009872 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 1089456009873 dimerization interface [polypeptide binding]; other site 1089456009874 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 1089456009875 Cupin domain; Region: Cupin_2; pfam07883 1089456009876 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 1089456009877 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1089456009878 benzoate transport; Region: 2A0115; TIGR00895 1089456009879 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456009880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456009881 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 1089456009882 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1089456009883 C-terminal domain interface [polypeptide binding]; other site 1089456009884 GSH binding site (G-site) [chemical binding]; other site 1089456009885 putative dimer interface [polypeptide binding]; other site 1089456009886 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1089456009887 dimer interface [polypeptide binding]; other site 1089456009888 N-terminal domain interface [polypeptide binding]; other site 1089456009889 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1089456009890 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1089456009891 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1089456009892 Cytochrome P450; Region: p450; cl12078 1089456009893 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1089456009894 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 1089456009895 dimerization domain [polypeptide binding]; other site 1089456009896 dimer interface [polypeptide binding]; other site 1089456009897 catalytic residues [active] 1089456009898 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1089456009899 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 1089456009900 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1089456009901 catalytic residues [active] 1089456009902 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1089456009903 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1089456009904 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 1089456009905 DsbD alpha interface [polypeptide binding]; other site 1089456009906 catalytic residues [active] 1089456009907 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1089456009908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456009909 active site 1089456009910 phosphorylation site [posttranslational modification] 1089456009911 intermolecular recognition site; other site 1089456009912 dimerization interface [polypeptide binding]; other site 1089456009913 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 1089456009914 DNA binding site [nucleotide binding] 1089456009915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456009916 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 1089456009917 dimer interface [polypeptide binding]; other site 1089456009918 phosphorylation site [posttranslational modification] 1089456009919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456009920 ATP binding site [chemical binding]; other site 1089456009921 G-X-G motif; other site 1089456009922 Cytochrome c [Energy production and conversion]; Region: COG3258 1089456009923 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456009924 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1089456009925 Cytochrome c; Region: Cytochrom_C; cl11414 1089456009926 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1089456009927 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1089456009928 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1089456009929 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456009930 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456009931 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456009932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456009933 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456009934 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456009935 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456009936 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1089456009937 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1089456009938 Enoylreductase; Region: PKS_ER; smart00829 1089456009939 putative NAD(P) binding site [chemical binding]; other site 1089456009940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456009941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009942 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 1089456009943 putative substrate binding pocket [chemical binding]; other site 1089456009944 putative dimerization interface [polypeptide binding]; other site 1089456009945 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456009946 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456009947 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456009948 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1089456009949 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456009950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1089456009951 DinB superfamily; Region: DinB_2; pfam12867 1089456009952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009953 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 1089456009954 dimerization interface [polypeptide binding]; other site 1089456009955 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 1089456009956 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1089456009957 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1089456009958 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 1089456009959 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 1089456009960 nucleoside/Zn binding site; other site 1089456009961 dimer interface [polypeptide binding]; other site 1089456009962 catalytic motif [active] 1089456009963 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1089456009964 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456009965 putative substrate translocation pore; other site 1089456009966 Leucine rich repeat; Region: LRR_8; pfam13855 1089456009967 Leucine rich repeat; Region: LRR_8; pfam13855 1089456009968 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1089456009969 active site 1089456009970 ATP binding site [chemical binding]; other site 1089456009971 substrate binding site [chemical binding]; other site 1089456009972 activation loop (A-loop); other site 1089456009973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 1089456009974 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456009975 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1089456009976 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 1089456009977 dimer interface [polypeptide binding]; other site 1089456009978 active site 1089456009979 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CatC1; COG4829 1089456009980 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1089456009981 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 1089456009982 octamer interface [polypeptide binding]; other site 1089456009983 active site 1089456009984 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1089456009985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456009986 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 1089456009987 dimerization interface [polypeptide binding]; other site 1089456009988 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456009989 chaperone protein DnaK; Region: prok_dnaK; TIGR02350 1089456009990 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 1089456009991 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 1089456009992 [2Fe-2S] cluster binding site [ion binding]; other site 1089456009993 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 1089456009994 putative alpha subunit interface [polypeptide binding]; other site 1089456009995 putative active site [active] 1089456009996 putative substrate binding site [chemical binding]; other site 1089456009997 Fe binding site [ion binding]; other site 1089456009998 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 1089456009999 inter-subunit interface; other site 1089456010000 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1089456010001 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 1089456010002 catalytic loop [active] 1089456010003 iron binding site [ion binding]; other site 1089456010004 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 1089456010005 FAD binding pocket [chemical binding]; other site 1089456010006 FAD binding motif [chemical binding]; other site 1089456010007 phosphate binding motif [ion binding]; other site 1089456010008 beta-alpha-beta structure motif; other site 1089456010009 NAD binding pocket [chemical binding]; other site 1089456010010 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1089456010011 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1089456010012 putative NAD(P) binding site [chemical binding]; other site 1089456010013 active site 1089456010014 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1089456010015 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 1089456010016 catalytic loop [active] 1089456010017 iron binding site [ion binding]; other site 1089456010018 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 1089456010019 FAD binding pocket [chemical binding]; other site 1089456010020 FAD binding motif [chemical binding]; other site 1089456010021 phosphate binding motif [ion binding]; other site 1089456010022 beta-alpha-beta structure motif; other site 1089456010023 NAD binding pocket [chemical binding]; other site 1089456010024 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 1089456010025 inter-subunit interface; other site 1089456010026 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1089456010027 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 1089456010028 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 1089456010029 putative alpha subunit interface [polypeptide binding]; other site 1089456010030 putative active site [active] 1089456010031 putative substrate binding site [chemical binding]; other site 1089456010032 Fe binding site [ion binding]; other site 1089456010033 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456010034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456010035 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456010036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456010037 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1089456010038 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456010039 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1089456010040 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456010041 Outer membrane efflux protein; Region: OEP; pfam02321 1089456010042 Outer membrane efflux protein; Region: OEP; pfam02321 1089456010043 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1089456010044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456010045 active site 1089456010046 phosphorylation site [posttranslational modification] 1089456010047 intermolecular recognition site; other site 1089456010048 dimerization interface [polypeptide binding]; other site 1089456010049 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 1089456010050 DNA binding site [nucleotide binding] 1089456010051 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1089456010052 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 1089456010053 dimerization interface [polypeptide binding]; other site 1089456010054 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 1089456010055 dimer interface [polypeptide binding]; other site 1089456010056 phosphorylation site [posttranslational modification] 1089456010057 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456010058 ATP binding site [chemical binding]; other site 1089456010059 Mg2+ binding site [ion binding]; other site 1089456010060 G-X-G motif; other site 1089456010061 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 1089456010062 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1089456010063 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1089456010064 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1089456010065 Protein export membrane protein; Region: SecD_SecF; cl14618 1089456010066 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 1089456010067 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456010068 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456010069 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456010070 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1089456010071 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1089456010072 putative aminotransferase; Provisional; Region: PRK09105 1089456010073 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 1089456010074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456010075 homodimer interface [polypeptide binding]; other site 1089456010076 catalytic residue [active] 1089456010077 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 1089456010078 dimer interface [polypeptide binding]; other site 1089456010079 catalytic triad [active] 1089456010080 peroxidatic and resolving cysteines [active] 1089456010081 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1089456010082 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1089456010083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456010084 LysR family transcriptional regulator; Provisional; Region: PRK14997 1089456010085 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 1089456010086 putative effector binding pocket; other site 1089456010087 putative dimerization interface [polypeptide binding]; other site 1089456010088 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 1089456010089 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456010090 active site 1089456010091 catalytic tetrad [active] 1089456010092 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1089456010093 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1089456010094 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1089456010095 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1089456010096 putative acyl-acceptor binding pocket; other site 1089456010097 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 1089456010098 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1089456010099 active site 1089456010100 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 1089456010101 active site 1089456010102 catalytic residues [active] 1089456010103 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1089456010104 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456010105 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1089456010106 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1089456010107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1089456010108 Family of unknown function (DUF490); Region: DUF490; pfam04357 1089456010109 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1089456010110 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1089456010111 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1089456010112 Surface antigen; Region: Bac_surface_Ag; pfam01103 1089456010113 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1089456010114 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1089456010115 Coenzyme A binding pocket [chemical binding]; other site 1089456010116 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 1089456010117 putative catalytic site [active] 1089456010118 putative phosphate binding site [ion binding]; other site 1089456010119 active site 1089456010120 metal binding site A [ion binding]; metal-binding site 1089456010121 DNA binding site [nucleotide binding] 1089456010122 putative AP binding site [nucleotide binding]; other site 1089456010123 putative metal binding site B [ion binding]; other site 1089456010124 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 1089456010125 dimer interface [polypeptide binding]; other site 1089456010126 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456010127 metal binding site [ion binding]; metal-binding site 1089456010128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456010129 LysR family transcriptional regulator; Provisional; Region: PRK14997 1089456010130 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 1089456010131 putative effector binding pocket; other site 1089456010132 dimerization interface [polypeptide binding]; other site 1089456010133 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1089456010134 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1089456010135 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456010136 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456010137 ligand binding site [chemical binding]; other site 1089456010138 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1089456010139 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456010140 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1089456010141 FAD binding site [chemical binding]; other site 1089456010142 substrate binding site [chemical binding]; other site 1089456010143 catalytic base [active] 1089456010144 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1089456010145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456010146 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 1089456010147 substrate binding pocket [chemical binding]; other site 1089456010148 dimerization interface [polypeptide binding]; other site 1089456010149 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456010150 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456010151 active site 1089456010152 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1089456010153 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 1089456010154 dimer interface [polypeptide binding]; other site 1089456010155 active site 1089456010156 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1089456010157 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1089456010158 NAD binding site [chemical binding]; other site 1089456010159 homodimer interface [polypeptide binding]; other site 1089456010160 homotetramer interface [polypeptide binding]; other site 1089456010161 active site 1089456010162 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1089456010163 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456010164 acyl-activating enzyme (AAE) consensus motif; other site 1089456010165 AMP binding site [chemical binding]; other site 1089456010166 active site 1089456010167 CoA binding site [chemical binding]; other site 1089456010168 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456010169 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456010170 SurA N-terminal domain; Region: SurA_N; pfam09312 1089456010171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456010172 AMP-binding domain protein; Validated; Region: PRK08315 1089456010173 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456010174 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1089456010175 acyl-activating enzyme (AAE) consensus motif; other site 1089456010176 putative AMP binding site [chemical binding]; other site 1089456010177 putative active site [active] 1089456010178 putative CoA binding site [chemical binding]; other site 1089456010179 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1089456010180 MgtC family; Region: MgtC; pfam02308 1089456010181 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1089456010182 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 1089456010183 dimerization interface [polypeptide binding]; other site 1089456010184 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456010185 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456010186 dimer interface [polypeptide binding]; other site 1089456010187 putative CheW interface [polypeptide binding]; other site 1089456010188 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1089456010189 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1089456010190 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1089456010191 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1089456010192 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 1089456010193 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1089456010194 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 1089456010195 S-adenosylmethionine binding site [chemical binding]; other site 1089456010196 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1089456010197 GAF domain; Region: GAF; pfam01590 1089456010198 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1089456010199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456010200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456010201 metal binding site [ion binding]; metal-binding site 1089456010202 active site 1089456010203 I-site; other site 1089456010204 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 1089456010205 PA-IL-like protein; Region: PA-IL; pfam07828 1089456010206 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456010207 ATP binding site [chemical binding]; other site 1089456010208 Mg2+ binding site [ion binding]; other site 1089456010209 G-X-G motif; other site 1089456010210 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1089456010211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456010212 active site 1089456010213 phosphorylation site [posttranslational modification] 1089456010214 intermolecular recognition site; other site 1089456010215 dimerization interface [polypeptide binding]; other site 1089456010216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456010217 Zn2+ binding site [ion binding]; other site 1089456010218 Mg2+ binding site [ion binding]; other site 1089456010219 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1089456010220 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 1089456010221 dimerization interface [polypeptide binding]; other site 1089456010222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456010223 dimer interface [polypeptide binding]; other site 1089456010224 putative CheW interface [polypeptide binding]; other site 1089456010225 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 1089456010226 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1089456010227 Di-iron ligands [ion binding]; other site 1089456010228 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 1089456010229 dimer interface [polypeptide binding]; other site 1089456010230 FMN binding site [chemical binding]; other site 1089456010231 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1089456010232 EamA-like transporter family; Region: EamA; pfam00892 1089456010233 EamA-like transporter family; Region: EamA; pfam00892 1089456010234 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456010235 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1089456010236 putative DNA binding site [nucleotide binding]; other site 1089456010237 putative Zn2+ binding site [ion binding]; other site 1089456010238 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456010239 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1089456010240 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456010241 Tryptophan 2,3-dioxygenase (vermilion) [Amino acid transport and metabolism]; Region: TDO2; COG3483 1089456010242 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1089456010243 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1089456010244 ProQ/FINO family; Region: ProQ; pfam04352 1089456010245 putative RNA binding sites [nucleotide binding]; other site 1089456010246 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 1089456010247 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1089456010248 substrate binding pocket [chemical binding]; other site 1089456010249 membrane-bound complex binding site; other site 1089456010250 hinge residues; other site 1089456010251 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456010252 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 1089456010253 substrate binding pocket [chemical binding]; other site 1089456010254 membrane-bound complex binding site; other site 1089456010255 hinge residues; other site 1089456010256 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 1089456010257 dimer interface [polypeptide binding]; other site 1089456010258 phosphorylation site [posttranslational modification] 1089456010259 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456010260 ATP binding site [chemical binding]; other site 1089456010261 Mg2+ binding site [ion binding]; other site 1089456010262 G-X-G motif; other site 1089456010263 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456010264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456010265 active site 1089456010266 phosphorylation site [posttranslational modification] 1089456010267 intermolecular recognition site; other site 1089456010268 dimerization interface [polypeptide binding]; other site 1089456010269 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1089456010270 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1089456010271 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1089456010272 GIY-YIG motif/motif A; other site 1089456010273 active site 1089456010274 catalytic site [active] 1089456010275 putative DNA binding site [nucleotide binding]; other site 1089456010276 metal binding site [ion binding]; metal-binding site 1089456010277 UvrB/uvrC motif; Region: UVR; pfam02151 1089456010278 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1089456010279 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 1089456010280 DNA binding site [nucleotide binding] 1089456010281 response regulator; Provisional; Region: PRK09483 1089456010282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456010283 active site 1089456010284 phosphorylation site [posttranslational modification] 1089456010285 intermolecular recognition site; other site 1089456010286 dimerization interface [polypeptide binding]; other site 1089456010287 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 1089456010288 DNA binding residues [nucleotide binding] 1089456010289 dimerization interface [polypeptide binding]; other site 1089456010290 hypothetical protein; Provisional; Region: PRK06753 1089456010291 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1089456010292 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456010293 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456010294 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456010295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456010296 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456010297 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1089456010298 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 1089456010299 N-terminal plug; other site 1089456010300 ligand-binding site [chemical binding]; other site 1089456010301 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456010302 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 1089456010303 DNA binding residues [nucleotide binding] 1089456010304 dimerization interface [polypeptide binding]; other site 1089456010305 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1089456010306 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456010307 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1089456010308 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 1089456010309 substrate binding pocket [chemical binding]; other site 1089456010310 membrane-bound complex binding site; other site 1089456010311 hinge residues; other site 1089456010312 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 1089456010313 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1089456010314 membrane-bound complex binding site; other site 1089456010315 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1089456010316 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 1089456010317 substrate binding pocket [chemical binding]; other site 1089456010318 membrane-bound complex binding site; other site 1089456010319 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456010320 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1089456010321 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 1089456010322 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1089456010323 dimer interface [polypeptide binding]; other site 1089456010324 active site 1089456010325 non-prolyl cis peptide bond; other site 1089456010326 insertion regions; other site 1089456010327 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1089456010328 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 1089456010329 substrate binding pocket [chemical binding]; other site 1089456010330 membrane-bound complex binding site; other site 1089456010331 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 1089456010332 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1089456010333 dimer interface [polypeptide binding]; other site 1089456010334 active site 1089456010335 non-prolyl cis peptide bond; other site 1089456010336 insertion regions; other site 1089456010337 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456010338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456010339 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 1089456010340 dimerization interface [polypeptide binding]; other site 1089456010341 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1089456010342 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 1089456010343 active site residue [active] 1089456010344 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 1089456010345 active site residue [active] 1089456010346 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 1089456010347 active site residue [active] 1089456010348 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 1089456010349 active site residue [active] 1089456010350 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1089456010351 YccA-like proteins; Region: YccA_like; cd10433 1089456010352 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1089456010353 sulfur relay protein TusC; Validated; Region: PRK00211 1089456010354 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 1089456010355 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1089456010356 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1089456010357 hypothetical protein; Validated; Region: PRK09071 1089456010358 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1089456010359 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1089456010360 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1089456010361 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1089456010362 putative dimer interface [polypeptide binding]; other site 1089456010363 N-terminal domain interface [polypeptide binding]; other site 1089456010364 putative substrate binding pocket (H-site) [chemical binding]; other site 1089456010365 siroheme synthase; Provisional; Region: cysG; PRK10637 1089456010366 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1089456010367 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1089456010368 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1089456010369 active site 1089456010370 SAM binding site [chemical binding]; other site 1089456010371 homodimer interface [polypeptide binding]; other site 1089456010372 seryl-tRNA synthetase; Provisional; Region: PRK05431 1089456010373 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1089456010374 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 1089456010375 dimer interface [polypeptide binding]; other site 1089456010376 active site 1089456010377 motif 1; other site 1089456010378 motif 2; other site 1089456010379 motif 3; other site 1089456010380 recombination factor protein RarA; Reviewed; Region: PRK13342 1089456010381 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 1089456010382 Walker A motif; other site 1089456010383 ATP binding site [chemical binding]; other site 1089456010384 Walker B motif; other site 1089456010385 arginine finger; other site 1089456010386 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1089456010387 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1089456010388 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1089456010389 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1089456010390 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1089456010391 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1089456010392 thioredoxin reductase; Provisional; Region: PRK10262 1089456010393 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456010394 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456010395 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1089456010396 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1089456010397 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1089456010398 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1089456010399 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 1089456010400 rRNA binding site [nucleotide binding]; other site 1089456010401 predicted 30S ribosome binding site; other site 1089456010402 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1089456010403 Clp amino terminal domain; Region: Clp_N; pfam02861 1089456010404 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 1089456010405 Walker A motif; other site 1089456010406 ATP binding site [chemical binding]; other site 1089456010407 Walker B motif; other site 1089456010408 arginine finger; other site 1089456010409 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 1089456010410 Walker A motif; other site 1089456010411 ATP binding site [chemical binding]; other site 1089456010412 Walker B motif; other site 1089456010413 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1089456010414 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1089456010415 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 1089456010416 DNA-binding site [nucleotide binding]; DNA binding site 1089456010417 RNA-binding motif; other site 1089456010418 isocitrate dehydrogenase; Validated; Region: PRK07362 1089456010419 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1089456010420 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1089456010421 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 1089456010422 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 1089456010423 nudix motif; other site 1089456010424 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1089456010425 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 1089456010426 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 1089456010427 EamA-like transporter family; Region: EamA; pfam00892 1089456010428 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1089456010429 adenylosuccinate lyase; Provisional; Region: PRK09285 1089456010430 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1089456010431 tetramer interface [polypeptide binding]; other site 1089456010432 active site 1089456010433 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1089456010434 Cupin domain; Region: Cupin_2; cl17218 1089456010435 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456010436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456010437 Coenzyme A binding pocket [chemical binding]; other site 1089456010438 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456010439 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1089456010440 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 1089456010441 tetramer interface [polypeptide binding]; other site 1089456010442 active site 1089456010443 Mg2+/Mn2+ binding site [ion binding]; other site 1089456010444 isocitrate lyase; Region: PLN02892 1089456010445 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1089456010446 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 1089456010447 CoenzymeA binding site [chemical binding]; other site 1089456010448 subunit interaction site [polypeptide binding]; other site 1089456010449 PHB binding site; other site 1089456010450 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1089456010451 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1089456010452 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1089456010453 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1089456010454 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1089456010455 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1089456010456 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 1089456010457 putative dimer interface [polypeptide binding]; other site 1089456010458 [2Fe-2S] cluster binding site [ion binding]; other site 1089456010459 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1089456010460 SLBB domain; Region: SLBB; pfam10531 1089456010461 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1089456010462 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1089456010463 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 1089456010464 catalytic loop [active] 1089456010465 iron binding site [ion binding]; other site 1089456010466 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1089456010467 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 1089456010468 [4Fe-4S] binding site [ion binding]; other site 1089456010469 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 1089456010470 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1089456010471 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1089456010472 4Fe-4S binding domain; Region: Fer4; pfam00037 1089456010473 4Fe-4S binding domain; Region: Fer4; pfam00037 1089456010474 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1089456010475 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1089456010476 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1089456010477 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1089456010478 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1089456010479 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1089456010480 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1089456010481 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1089456010482 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1089456010483 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1089456010484 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 1089456010485 S-adenosylmethionine binding site [chemical binding]; other site 1089456010486 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1089456010487 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1089456010488 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 1089456010489 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 1089456010490 dimerization interface [polypeptide binding]; other site 1089456010491 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456010492 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456010493 dimer interface [polypeptide binding]; other site 1089456010494 putative CheW interface [polypeptide binding]; other site 1089456010495 Predicted permease [General function prediction only]; Region: COG2056 1089456010496 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1089456010497 Cache domain; Region: Cache_1; pfam02743 1089456010498 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 1089456010499 dimerization interface [polypeptide binding]; other site 1089456010500 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456010501 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456010502 dimer interface [polypeptide binding]; other site 1089456010503 putative CheW interface [polypeptide binding]; other site 1089456010504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456010505 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456010506 ATP binding site [chemical binding]; other site 1089456010507 Mg2+ binding site [ion binding]; other site 1089456010508 G-X-G motif; other site 1089456010509 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456010510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456010511 active site 1089456010512 phosphorylation site [posttranslational modification] 1089456010513 intermolecular recognition site; other site 1089456010514 dimerization interface [polypeptide binding]; other site 1089456010515 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 1089456010516 DNA binding site [nucleotide binding] 1089456010517 Predicted membrane protein [Function unknown]; Region: COG3212 1089456010518 Predicted membrane protein [Function unknown]; Region: COG3212 1089456010519 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1089456010520 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1089456010521 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1089456010522 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1089456010523 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 1089456010524 heme-binding site [chemical binding]; other site 1089456010525 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 1089456010526 FAD binding pocket [chemical binding]; other site 1089456010527 FAD binding motif [chemical binding]; other site 1089456010528 phosphate binding motif [ion binding]; other site 1089456010529 beta-alpha-beta structure motif; other site 1089456010530 NAD binding pocket [chemical binding]; other site 1089456010531 Heme binding pocket [chemical binding]; other site 1089456010532 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1089456010533 GAF domain; Region: GAF; pfam01590 1089456010534 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 1089456010535 Walker A motif; other site 1089456010536 ATP binding site [chemical binding]; other site 1089456010537 Walker B motif; other site 1089456010538 arginine finger; other site 1089456010539 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1089456010540 active site 1089456010541 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 1089456010542 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1089456010543 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1089456010544 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1089456010545 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1089456010546 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1089456010547 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1089456010548 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1089456010549 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1089456010550 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1089456010551 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456010552 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456010553 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1089456010554 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1089456010555 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 1089456010556 Walker A motif; other site 1089456010557 ATP binding site [chemical binding]; other site 1089456010558 Walker B motif; other site 1089456010559 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1089456010560 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1089456010561 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 1089456010562 S-adenosylmethionine binding site [chemical binding]; other site 1089456010563 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1089456010564 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1089456010565 NADP binding site [chemical binding]; other site 1089456010566 dimer interface [polypeptide binding]; other site 1089456010567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456010568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456010569 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 1089456010570 putative effector binding pocket; other site 1089456010571 dimerization interface [polypeptide binding]; other site 1089456010572 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1089456010573 SnoaL-like domain; Region: SnoaL_2; pfam12680 1089456010574 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1089456010575 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 1089456010576 tetramer interface [polypeptide binding]; other site 1089456010577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456010578 catalytic residue [active] 1089456010579 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456010580 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 1089456010581 substrate binding pocket [chemical binding]; other site 1089456010582 membrane-bound complex binding site; other site 1089456010583 hinge residues; other site 1089456010584 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1089456010585 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1089456010586 Walker A/P-loop; other site 1089456010587 ATP binding site [chemical binding]; other site 1089456010588 Q-loop/lid; other site 1089456010589 ABC transporter signature motif; other site 1089456010590 Walker B; other site 1089456010591 D-loop; other site 1089456010592 H-loop/switch region; other site 1089456010593 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456010594 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456010595 dimer interface [polypeptide binding]; other site 1089456010596 conserved gate region; other site 1089456010597 putative PBP binding loops; other site 1089456010598 ABC-ATPase subunit interface; other site 1089456010599 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456010600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456010601 dimer interface [polypeptide binding]; other site 1089456010602 conserved gate region; other site 1089456010603 putative PBP binding loops; other site 1089456010604 ABC-ATPase subunit interface; other site 1089456010605 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1089456010606 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1089456010607 inhibitor site; inhibition site 1089456010608 active site 1089456010609 dimer interface [polypeptide binding]; other site 1089456010610 catalytic residue [active] 1089456010611 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1089456010612 Proline racemase; Region: Pro_racemase; pfam05544 1089456010613 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1089456010614 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1089456010615 betaine aldehyde dehydrogenase; Region: PLN02467 1089456010616 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 1089456010617 NAD(P) binding site [chemical binding]; other site 1089456010618 catalytic residues [active] 1089456010619 catalytic residues [active] 1089456010620 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1089456010621 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1089456010622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456010623 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1089456010624 DNA-binding site [nucleotide binding]; DNA binding site 1089456010625 FCD domain; Region: FCD; pfam07729 1089456010626 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456010627 RHS Repeat; Region: RHS_repeat; pfam05593 1089456010628 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456010629 RHS Repeat; Region: RHS_repeat; pfam05593 1089456010630 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1089456010631 RHS Repeat; Region: RHS_repeat; pfam05593 1089456010632 RHS Repeat; Region: RHS_repeat; cl11982 1089456010633 RHS protein; Region: RHS; pfam03527 1089456010634 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1089456010635 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1089456010636 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456010637 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456010638 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1089456010639 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1089456010640 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456010641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456010642 active site 1089456010643 phosphorylation site [posttranslational modification] 1089456010644 intermolecular recognition site; other site 1089456010645 dimerization interface [polypeptide binding]; other site 1089456010646 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 1089456010647 DNA binding site [nucleotide binding] 1089456010648 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456010649 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 1089456010650 phosphorylation site [posttranslational modification] 1089456010651 dimer interface [polypeptide binding]; other site 1089456010652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456010653 ATP binding site [chemical binding]; other site 1089456010654 Mg2+ binding site [ion binding]; other site 1089456010655 G-X-G motif; other site 1089456010656 outer membrane receptor FepA; Provisional; Region: PRK13524 1089456010657 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 1089456010658 N-terminal plug; other site 1089456010659 ligand-binding site [chemical binding]; other site 1089456010660 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1089456010661 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1089456010662 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456010663 Predicted transcriptional regulator [Transcription]; Region: COG1959 1089456010664 Transcriptional regulator; Region: Rrf2; pfam02082 1089456010665 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 1089456010666 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 1089456010667 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1089456010668 catalytic residues [active] 1089456010669 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1089456010670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456010671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456010672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456010673 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 1089456010674 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 1089456010675 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456010676 catalytic triad [active] 1089456010677 dimer interface [polypeptide binding]; other site 1089456010678 conserved cis-peptide bond; other site 1089456010679 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1089456010680 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 1089456010681 active site 1089456010682 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456010683 Transmembrane secretion effector; Region: MFS_3; pfam05977 1089456010684 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456010685 putative substrate translocation pore; other site 1089456010686 Tse2 immunity protein Tsi2 and similar proteins; Region: Tsi2_like; cd11690 1089456010687 dimer interface [polypeptide binding]; other site 1089456010688 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456010689 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456010690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1089456010691 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1089456010692 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1089456010693 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 1089456010694 Walker A motif; other site 1089456010695 ATP binding site [chemical binding]; other site 1089456010696 Walker B motif; other site 1089456010697 arginine finger; other site 1089456010698 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1089456010699 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1089456010700 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 1089456010701 dimer interface [polypeptide binding]; other site 1089456010702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456010703 catalytic residue [active] 1089456010704 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456010705 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1089456010706 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456010707 Predicted transcriptional regulators [Transcription]; Region: COG1733 1089456010708 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1089456010709 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 1089456010710 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1089456010711 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 1089456010712 putative [Fe4-S4] binding site [ion binding]; other site 1089456010713 putative molybdopterin cofactor binding site [chemical binding]; other site 1089456010714 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 1089456010715 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 1089456010716 putative molybdopterin cofactor binding site; other site 1089456010717 Ferredoxin [Energy production and conversion]; Region: COG1146 1089456010718 4Fe-4S binding domain; Region: Fer4; cl02805 1089456010719 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1089456010720 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456010721 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 1089456010722 putative active site [active] 1089456010723 putative FMN binding site [chemical binding]; other site 1089456010724 putative substrate binding site [chemical binding]; other site 1089456010725 putative catalytic residue [active] 1089456010726 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456010727 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456010728 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456010729 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1089456010730 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1089456010731 DNA binding residues [nucleotide binding] 1089456010732 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1089456010733 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1089456010734 potential catalytic triad [active] 1089456010735 conserved cys residue [active] 1089456010736 fec operon regulator FecR; Reviewed; Region: PRK09774 1089456010737 FecR protein; Region: FecR; pfam04773 1089456010738 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1089456010739 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1089456010740 DNA binding residues [nucleotide binding] 1089456010741 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 1089456010742 dimer interface [polypeptide binding]; other site 1089456010743 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1089456010744 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1089456010745 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 1089456010746 Walker A motif; other site 1089456010747 ATP binding site [chemical binding]; other site 1089456010748 Walker B motif; other site 1089456010749 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1089456010750 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1089456010751 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1089456010752 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1089456010753 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1089456010754 active site 1089456010755 ATP binding site [chemical binding]; other site 1089456010756 substrate binding site [chemical binding]; other site 1089456010757 activation loop (A-loop); other site 1089456010758 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1089456010759 AAA domain; Region: AAA_11; pfam13086 1089456010760 Part of AAA domain; Region: AAA_19; pfam13245 1089456010761 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1089456010762 AAA domain; Region: AAA_12; pfam13087 1089456010763 Transposase; Region: HTH_Tnp_1; pfam01527 1089456010764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1089456010765 HTH-like domain; Region: HTH_21; pfam13276 1089456010766 Integrase core domain; Region: rve; pfam00665 1089456010767 Integrase core domain; Region: rve_3; pfam13683 1089456010768 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1089456010769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1089456010770 Walker A/P-loop; other site 1089456010771 ATP binding site [chemical binding]; other site 1089456010772 Q-loop/lid; other site 1089456010773 HTH-like domain; Region: HTH_21; pfam13276 1089456010774 Integrase core domain; Region: rve; pfam00665 1089456010775 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1089456010776 Integrase core domain; Region: rve_3; cl15866 1089456010777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1089456010778 Transposase; Region: HTH_Tnp_1; pfam01527 1089456010779 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1089456010780 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1089456010781 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 1089456010782 ATP binding site [chemical binding]; other site 1089456010783 putative Mg++ binding site [ion binding]; other site 1089456010784 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1089456010785 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1089456010786 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1089456010787 Part of AAA domain; Region: AAA_19; pfam13245 1089456010788 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1089456010789 Family description; Region: UvrD_C_2; pfam13538 1089456010790 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1089456010791 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1089456010792 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 1089456010793 putative active site [active] 1089456010794 putative metal-binding site [ion binding]; other site 1089456010795 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1089456010796 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1089456010797 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1089456010798 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1089456010799 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1089456010800 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 1089456010801 DNA protecting protein DprA; Region: dprA; TIGR00732 1089456010802 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1089456010803 FaeA-like protein; Region: FaeA; pfam04703 1089456010804 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1089456010805 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 1089456010806 ATP binding site [chemical binding]; other site 1089456010807 putative Mg++ binding site [ion binding]; other site 1089456010808 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 1089456010809 nucleotide binding region [chemical binding]; other site 1089456010810 ATP-binding site [chemical binding]; other site 1089456010811 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456010812 active site 1089456010813 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1089456010814 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1089456010815 DNA binding residues [nucleotide binding] 1089456010816 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 1089456010817 IHF dimer interface [polypeptide binding]; other site 1089456010818 IHF - DNA interface [nucleotide binding]; other site 1089456010819 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1089456010820 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 1089456010821 putative tRNA-binding site [nucleotide binding]; other site 1089456010822 B3/4 domain; Region: B3_4; pfam03483 1089456010823 tRNA synthetase B5 domain; Region: B5; smart00874 1089456010824 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 1089456010825 dimer interface [polypeptide binding]; other site 1089456010826 motif 1; other site 1089456010827 motif 3; other site 1089456010828 motif 2; other site 1089456010829 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1089456010830 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1089456010831 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1089456010832 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 1089456010833 dimer interface [polypeptide binding]; other site 1089456010834 motif 1; other site 1089456010835 active site 1089456010836 motif 2; other site 1089456010837 motif 3; other site 1089456010838 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1089456010839 23S rRNA binding site [nucleotide binding]; other site 1089456010840 L21 binding site [polypeptide binding]; other site 1089456010841 L13 binding site [polypeptide binding]; other site 1089456010842 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1089456010843 translation initiation factor IF-3; Region: infC; TIGR00168 1089456010844 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1089456010845 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1089456010846 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1089456010847 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 1089456010848 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1089456010849 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 1089456010850 active site 1089456010851 dimer interface [polypeptide binding]; other site 1089456010852 motif 1; other site 1089456010853 motif 2; other site 1089456010854 motif 3; other site 1089456010855 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 1089456010856 anticodon binding site; other site 1089456010857 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456010858 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1089456010859 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 1089456010860 active site 1089456010861 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1089456010862 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1089456010863 DNA-specific endonuclease I; Provisional; Region: PRK15137 1089456010864 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1089456010865 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1089456010866 Predicted membrane protein [Function unknown]; Region: COG1238 1089456010867 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1089456010868 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1089456010869 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 1089456010870 secondary substrate binding site; other site 1089456010871 primary substrate binding site; other site 1089456010872 inhibition loop; other site 1089456010873 dimerization interface [polypeptide binding]; other site 1089456010874 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1089456010875 Predicted membrane protein [Function unknown]; Region: COG4125 1089456010876 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1089456010877 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1089456010878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456010879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456010880 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 1089456010881 dimerization interface [polypeptide binding]; other site 1089456010882 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456010883 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1089456010884 Serine hydrolase; Region: Ser_hydrolase; cl17834 1089456010885 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456010886 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1089456010887 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456010888 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456010889 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1089456010890 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 1089456010891 substrate binding site [chemical binding]; other site 1089456010892 oxyanion hole (OAH) forming residues; other site 1089456010893 trimer interface [polypeptide binding]; other site 1089456010894 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 1089456010895 nudix motif; other site 1089456010896 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1089456010897 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 1089456010898 active site 1089456010899 motif I; other site 1089456010900 motif II; other site 1089456010901 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1089456010902 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456010903 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456010904 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1089456010905 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 1089456010906 putative active site [active] 1089456010907 TPR repeat; Region: TPR_11; pfam13414 1089456010908 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 1089456010909 binding surface 1089456010910 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 1089456010911 active site 1089456010912 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1089456010913 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1089456010914 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1089456010915 Predicted transcriptional regulator [Transcription]; Region: COG3655 1089456010916 salt bridge; other site 1089456010917 non-specific DNA binding site [nucleotide binding]; other site 1089456010918 sequence-specific DNA binding site [nucleotide binding]; other site 1089456010919 GAF domain; Region: GAF_2; pfam13185 1089456010920 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1089456010921 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1089456010922 metal binding site [ion binding]; metal-binding site 1089456010923 dimer interface [polypeptide binding]; other site 1089456010924 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1089456010925 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456010926 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456010927 dimer interface [polypeptide binding]; other site 1089456010928 putative CheW interface [polypeptide binding]; other site 1089456010929 drug efflux system protein MdtG; Provisional; Region: PRK09874 1089456010930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456010931 putative substrate translocation pore; other site 1089456010932 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456010933 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 1089456010934 catalytic triad [active] 1089456010935 conserved cis-peptide bond; other site 1089456010936 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1089456010937 Predicted chitinase [General function prediction only]; Region: COG3179 1089456010938 catalytic residue [active] 1089456010939 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1089456010940 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1089456010941 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1089456010942 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1089456010943 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1089456010944 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1089456010945 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1089456010946 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 1089456010947 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1089456010948 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 1089456010949 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1089456010950 Baseplate J-like protein; Region: Baseplate_J; cl01294 1089456010951 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 1089456010952 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1089456010953 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1089456010954 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1089456010955 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1089456010956 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1089456010957 tandem repeat interface [polypeptide binding]; other site 1089456010958 oligomer interface [polypeptide binding]; other site 1089456010959 active site residues [active] 1089456010960 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1089456010961 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1089456010962 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1089456010963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1089456010964 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1089456010965 active site 1089456010966 metal binding site [ion binding]; metal-binding site 1089456010967 interdomain interaction site; other site 1089456010968 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 1089456010969 Virulence-associated protein E; Region: VirE; pfam05272 1089456010970 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 1089456010971 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 1089456010972 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 1089456010973 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1089456010974 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1089456010975 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 1089456010976 FMN binding site [chemical binding]; other site 1089456010977 active site 1089456010978 catalytic residues [active] 1089456010979 substrate binding site [chemical binding]; other site 1089456010980 transaldolase-like protein; Provisional; Region: PTZ00411 1089456010981 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1089456010982 active site 1089456010983 dimer interface [polypeptide binding]; other site 1089456010984 catalytic residue [active] 1089456010985 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 1089456010986 anti sigma factor interaction site; other site 1089456010987 regulatory phosphorylation site [posttranslational modification]; other site 1089456010988 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456010989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456010990 active site 1089456010991 phosphorylation site [posttranslational modification] 1089456010992 intermolecular recognition site; other site 1089456010993 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1089456010994 dimerization interface [polypeptide binding]; other site 1089456010995 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1089456010996 PilZ domain; Region: PilZ; pfam07238 1089456010997 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1089456010998 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 1089456010999 active site 1089456011000 transcriptional regulator protein; Region: phnR; TIGR03337 1089456011001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456011002 DNA-binding site [nucleotide binding]; DNA binding site 1089456011003 UTRA domain; Region: UTRA; pfam07702 1089456011004 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1089456011005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456011006 Zn2+ binding site [ion binding]; other site 1089456011007 Mg2+ binding site [ion binding]; other site 1089456011008 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1089456011009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1089456011010 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1089456011011 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1089456011012 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1089456011013 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1089456011014 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1089456011015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456011016 active site 1089456011017 phosphorylation site [posttranslational modification] 1089456011018 intermolecular recognition site; other site 1089456011019 dimerization interface [polypeptide binding]; other site 1089456011020 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 1089456011021 DNA binding site [nucleotide binding] 1089456011022 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1089456011023 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 1089456011024 dimerization interface [polypeptide binding]; other site 1089456011025 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 1089456011026 dimer interface [polypeptide binding]; other site 1089456011027 phosphorylation site [posttranslational modification] 1089456011028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456011029 ATP binding site [chemical binding]; other site 1089456011030 Mg2+ binding site [ion binding]; other site 1089456011031 G-X-G motif; other site 1089456011032 inner membrane transport permease; Provisional; Region: PRK15066 1089456011033 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1089456011034 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1089456011035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456011036 Walker A/P-loop; other site 1089456011037 ATP binding site [chemical binding]; other site 1089456011038 Q-loop/lid; other site 1089456011039 ABC transporter signature motif; other site 1089456011040 Walker B; other site 1089456011041 D-loop; other site 1089456011042 H-loop/switch region; other site 1089456011043 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456011044 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 1089456011045 putative C-terminal domain interface [polypeptide binding]; other site 1089456011046 putative GSH binding site (G-site) [chemical binding]; other site 1089456011047 putative dimer interface [polypeptide binding]; other site 1089456011048 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1089456011049 putative N-terminal domain interface [polypeptide binding]; other site 1089456011050 putative dimer interface [polypeptide binding]; other site 1089456011051 putative substrate binding pocket (H-site) [chemical binding]; other site 1089456011052 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1089456011053 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1089456011054 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1089456011055 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1089456011056 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1089456011057 active site 1089456011058 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1089456011059 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1089456011060 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 1089456011061 ligand binding site [chemical binding]; other site 1089456011062 flexible hinge region; other site 1089456011063 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1089456011064 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1089456011065 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1089456011066 DNA binding residues [nucleotide binding] 1089456011067 Killing trait; Region: RebB; pfam11747 1089456011068 Killing trait; Region: RebB; pfam11747 1089456011069 Killing trait; Region: RebB; pfam11747 1089456011070 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456011071 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 1089456011072 C-terminal domain interface [polypeptide binding]; other site 1089456011073 GSH binding site (G-site) [chemical binding]; other site 1089456011074 dimer interface [polypeptide binding]; other site 1089456011075 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1089456011076 N-terminal domain interface [polypeptide binding]; other site 1089456011077 dimer interface [polypeptide binding]; other site 1089456011078 substrate binding pocket (H-site) [chemical binding]; other site 1089456011079 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1089456011080 GAF domain; Region: GAF_2; pfam13185 1089456011081 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1089456011082 Protein of unknown function (DUF815); Region: DUF815; pfam05673 1089456011083 Walker A motif; other site 1089456011084 ATP binding site [chemical binding]; other site 1089456011085 Walker B motif; other site 1089456011086 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1089456011087 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456011088 ATP binding site [chemical binding]; other site 1089456011089 Mg2+ binding site [ion binding]; other site 1089456011090 G-X-G motif; other site 1089456011091 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456011092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456011093 active site 1089456011094 phosphorylation site [posttranslational modification] 1089456011095 intermolecular recognition site; other site 1089456011096 dimerization interface [polypeptide binding]; other site 1089456011097 MarR family; Region: MarR_2; cl17246 1089456011098 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1089456011099 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 1089456011100 catalytic residues [active] 1089456011101 dimer interface [polypeptide binding]; other site 1089456011102 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1089456011103 SelR domain; Region: SelR; pfam01641 1089456011104 aminotransferase AlaT; Validated; Region: PRK09265 1089456011105 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 1089456011106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456011107 homodimer interface [polypeptide binding]; other site 1089456011108 catalytic residue [active] 1089456011109 heat shock protein HtpX; Provisional; Region: PRK05457 1089456011110 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1089456011111 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1089456011112 putative active site [active] 1089456011113 Zn binding site [ion binding]; other site 1089456011114 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1089456011115 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 1089456011116 Ligand Binding Site [chemical binding]; other site 1089456011117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011119 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 1089456011120 putative substrate binding pocket [chemical binding]; other site 1089456011121 putative dimerization interface [polypeptide binding]; other site 1089456011122 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1089456011123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456011124 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1089456011125 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456011126 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456011127 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1089456011128 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011130 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 1089456011131 putative effector binding pocket; other site 1089456011132 dimerization interface [polypeptide binding]; other site 1089456011133 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 1089456011134 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1089456011135 putative active site [active] 1089456011136 metal binding site [ion binding]; metal-binding site 1089456011137 helicase 45; Provisional; Region: PTZ00424 1089456011138 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 1089456011139 ATP binding site [chemical binding]; other site 1089456011140 Mg++ binding site [ion binding]; other site 1089456011141 motif III; other site 1089456011142 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 1089456011143 nucleotide binding region [chemical binding]; other site 1089456011144 ATP-binding site [chemical binding]; other site 1089456011145 DbpA RNA binding domain; Region: DbpA; pfam03880 1089456011146 enoyl-CoA hydratase; Provisional; Region: PRK06563 1089456011147 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 1089456011148 substrate binding site [chemical binding]; other site 1089456011149 oxyanion hole (OAH) forming residues; other site 1089456011150 trimer interface [polypeptide binding]; other site 1089456011151 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 1089456011152 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1089456011153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1089456011154 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1089456011155 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1089456011156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011158 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 1089456011159 dimerization interface [polypeptide binding]; other site 1089456011160 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1089456011161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011163 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 1089456011164 putative effector binding pocket; other site 1089456011165 dimerization interface [polypeptide binding]; other site 1089456011166 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1089456011167 MarR family; Region: MarR; pfam01047 1089456011168 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1089456011169 elongation factor P; Validated; Region: PRK00529 1089456011170 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1089456011171 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 1089456011172 RNA binding site [nucleotide binding]; other site 1089456011173 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 1089456011174 RNA binding site [nucleotide binding]; other site 1089456011175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1089456011176 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1089456011177 Protein of unknown function (DUF3359); Region: DUF3359; pfam11839 1089456011178 L,D-transpeptidase; Provisional; Region: PRK10260 1089456011179 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1089456011180 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1089456011181 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 1089456011182 active site 1089456011183 catalytic triad [active] 1089456011184 oxyanion hole [active] 1089456011185 switch loop; other site 1089456011186 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1089456011187 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1089456011188 Walker A/P-loop; other site 1089456011189 ATP binding site [chemical binding]; other site 1089456011190 Q-loop/lid; other site 1089456011191 ABC transporter signature motif; other site 1089456011192 Walker B; other site 1089456011193 D-loop; other site 1089456011194 H-loop/switch region; other site 1089456011195 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1089456011196 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1089456011197 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1089456011198 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1089456011199 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1089456011200 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1089456011201 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1089456011202 lipase chaperone; Provisional; Region: PRK01294 1089456011203 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1089456011204 Predicted membrane protein [Function unknown]; Region: COG2259 1089456011205 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 1089456011206 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 1089456011207 substrate binding pocket [chemical binding]; other site 1089456011208 membrane-bound complex binding site; other site 1089456011209 hinge residues; other site 1089456011210 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 1089456011211 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456011212 catalytic residue [active] 1089456011213 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1089456011214 active site 1089456011215 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 1089456011216 dimerization interface [polypeptide binding]; other site 1089456011217 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456011218 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456011219 dimer interface [polypeptide binding]; other site 1089456011220 putative CheW interface [polypeptide binding]; other site 1089456011221 Terminase small subunit; Region: Terminase_2; cl01513 1089456011222 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 1089456011223 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456011224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456011225 metal binding site [ion binding]; metal-binding site 1089456011226 active site 1089456011227 I-site; other site 1089456011228 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1089456011229 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 1089456011230 active site 1089456011231 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 1089456011232 active site 2 [active] 1089456011233 active site 1 [active] 1089456011234 Uncharacterized conserved protein [Function unknown]; Region: COG5607 1089456011235 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1089456011236 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1089456011237 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1089456011238 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1089456011239 Protein of unknown function DUF58; Region: DUF58; pfam01882 1089456011240 MoxR-like ATPases [General function prediction only]; Region: COG0714 1089456011241 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 1089456011242 Walker A motif; other site 1089456011243 ATP binding site [chemical binding]; other site 1089456011244 Walker B motif; other site 1089456011245 arginine finger; other site 1089456011246 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 1089456011247 active site 1089456011248 dimer interface [polypeptide binding]; other site 1089456011249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011251 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 1089456011252 putative effector binding pocket; other site 1089456011253 putative dimerization interface [polypeptide binding]; other site 1089456011254 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 1089456011255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011257 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 1089456011258 dimerization interface [polypeptide binding]; other site 1089456011259 Predicted membrane protein [Function unknown]; Region: COG4125 1089456011260 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1089456011261 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1089456011262 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456011263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456011264 active site 1089456011265 phosphorylation site [posttranslational modification] 1089456011266 intermolecular recognition site; other site 1089456011267 dimerization interface [polypeptide binding]; other site 1089456011268 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 1089456011269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456011270 ATP binding site [chemical binding]; other site 1089456011271 Mg2+ binding site [ion binding]; other site 1089456011272 G-X-G motif; other site 1089456011273 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1089456011274 CAAX protease self-immunity; Region: Abi; pfam02517 1089456011275 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456011276 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456011277 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1089456011278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456011279 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456011280 NAD(P) binding site [chemical binding]; other site 1089456011281 active site 1089456011282 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1089456011283 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1089456011284 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1089456011285 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456011286 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456011287 active site 1089456011288 enoyl-CoA hydratase; Provisional; Region: PRK05995 1089456011289 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 1089456011290 substrate binding site [chemical binding]; other site 1089456011291 oxyanion hole (OAH) forming residues; other site 1089456011292 trimer interface [polypeptide binding]; other site 1089456011293 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1089456011294 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456011295 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1089456011296 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1089456011297 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 1089456011298 carboxyltransferase (CT) interaction site; other site 1089456011299 biotinylation site [posttranslational modification]; other site 1089456011300 short chain dehydrogenase; Provisional; Region: PRK08278 1089456011301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456011302 NAD(P) binding site [chemical binding]; other site 1089456011303 active site 1089456011304 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 1089456011305 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456011306 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456011307 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 1089456011308 acyl-activating enzyme (AAE) consensus motif; other site 1089456011309 acyl-activating enzyme (AAE) consensus motif; other site 1089456011310 putative AMP binding site [chemical binding]; other site 1089456011311 putative active site [active] 1089456011312 putative CoA binding site [chemical binding]; other site 1089456011313 RNA polymerase sigma factor; Provisional; Region: PRK12513 1089456011314 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456011315 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 1089456011316 DNA binding residues [nucleotide binding] 1089456011317 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 1089456011318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456011319 DNA-binding site [nucleotide binding]; DNA binding site 1089456011320 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 1089456011321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456011322 homodimer interface [polypeptide binding]; other site 1089456011323 catalytic residue [active] 1089456011324 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456011325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456011326 active site 1089456011327 phosphorylation site [posttranslational modification] 1089456011328 intermolecular recognition site; other site 1089456011329 dimerization interface [polypeptide binding]; other site 1089456011330 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 1089456011331 DNA binding residues [nucleotide binding] 1089456011332 dimerization interface [polypeptide binding]; other site 1089456011333 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456011334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456011335 ligand binding site [chemical binding]; other site 1089456011336 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1089456011337 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 1089456011338 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456011339 substrate binding pocket [chemical binding]; other site 1089456011340 membrane-bound complex binding site; other site 1089456011341 hinge residues; other site 1089456011342 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1089456011343 active site 1089456011344 SAM binding site [chemical binding]; other site 1089456011345 homodimer interface [polypeptide binding]; other site 1089456011346 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1089456011347 precorrin-3B synthase; Region: CobG; TIGR02435 1089456011348 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1089456011349 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1089456011350 active site 1089456011351 putative homodimer interface [polypeptide binding]; other site 1089456011352 SAM binding site [chemical binding]; other site 1089456011353 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1089456011354 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 1089456011355 S-adenosylmethionine binding site [chemical binding]; other site 1089456011356 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1089456011357 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1089456011358 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1089456011359 Predicted membrane protein [Function unknown]; Region: COG1971 1089456011360 Domain of unknown function DUF; Region: DUF204; pfam02659 1089456011361 Domain of unknown function DUF; Region: DUF204; pfam02659 1089456011362 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1089456011363 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 1089456011364 N-terminal plug; other site 1089456011365 ligand-binding site [chemical binding]; other site 1089456011366 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1089456011367 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1089456011368 Walker A/P-loop; other site 1089456011369 ATP binding site [chemical binding]; other site 1089456011370 Q-loop/lid; other site 1089456011371 ABC transporter signature motif; other site 1089456011372 Walker B; other site 1089456011373 D-loop; other site 1089456011374 H-loop/switch region; other site 1089456011375 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 1089456011376 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1089456011377 putative ligand binding residues [chemical binding]; other site 1089456011378 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1089456011379 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 1089456011380 ABC-ATPase subunit interface; other site 1089456011381 dimer interface [polypeptide binding]; other site 1089456011382 putative PBP binding regions; other site 1089456011383 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1089456011384 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456011385 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456011386 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456011387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456011388 short chain dehydrogenase; Provisional; Region: PRK12744 1089456011389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456011390 NAD(P) binding site [chemical binding]; other site 1089456011391 active site 1089456011392 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 1089456011393 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1089456011394 dimerization interface [polypeptide binding]; other site 1089456011395 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456011396 dimer interface [polypeptide binding]; other site 1089456011397 putative CheW interface [polypeptide binding]; other site 1089456011398 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1089456011399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011400 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1089456011401 dimerization interface [polypeptide binding]; other site 1089456011402 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1089456011403 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1089456011404 metal binding site [ion binding]; metal-binding site 1089456011405 putative dimer interface [polypeptide binding]; other site 1089456011406 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1089456011407 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 1089456011408 substrate binding pocket [chemical binding]; other site 1089456011409 membrane-bound complex binding site; other site 1089456011410 hinge residues; other site 1089456011411 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456011412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456011413 dimer interface [polypeptide binding]; other site 1089456011414 conserved gate region; other site 1089456011415 putative PBP binding loops; other site 1089456011416 ABC-ATPase subunit interface; other site 1089456011417 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456011418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456011419 dimer interface [polypeptide binding]; other site 1089456011420 conserved gate region; other site 1089456011421 putative PBP binding loops; other site 1089456011422 ABC-ATPase subunit interface; other site 1089456011423 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1089456011424 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1089456011425 Walker A/P-loop; other site 1089456011426 ATP binding site [chemical binding]; other site 1089456011427 Q-loop/lid; other site 1089456011428 ABC transporter signature motif; other site 1089456011429 Walker B; other site 1089456011430 D-loop; other site 1089456011431 H-loop/switch region; other site 1089456011432 Serine hydrolase; Region: Ser_hydrolase; cl17834 1089456011433 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456011434 LysE type translocator; Region: LysE; cl00565 1089456011435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011437 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 1089456011438 dimerization interface [polypeptide binding]; other site 1089456011439 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456011440 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456011441 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456011442 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 1089456011443 FMN binding site [chemical binding]; other site 1089456011444 active site 1089456011445 substrate binding site [chemical binding]; other site 1089456011446 catalytic residue [active] 1089456011447 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1089456011448 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456011449 putative substrate translocation pore; other site 1089456011450 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456011451 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1089456011452 xanthine permease; Region: pbuX; TIGR03173 1089456011453 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1089456011454 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1089456011455 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 1089456011456 PA/protease or protease-like domain interface [polypeptide binding]; other site 1089456011457 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 1089456011458 active site 1089456011459 metal binding site [ion binding]; metal-binding site 1089456011460 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 1089456011461 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1089456011462 dimer interface [polypeptide binding]; other site 1089456011463 active site 1089456011464 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 1089456011465 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 1089456011466 metal ion-dependent adhesion site (MIDAS); other site 1089456011467 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 1089456011468 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 1089456011469 Walker A motif; other site 1089456011470 ATP binding site [chemical binding]; other site 1089456011471 Walker B motif; other site 1089456011472 arginine finger; other site 1089456011473 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1089456011474 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1089456011475 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1089456011476 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1089456011477 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1089456011478 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1089456011479 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1089456011480 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1089456011481 Predicted integral membrane protein [Function unknown]; Region: COG5446 1089456011482 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1089456011483 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1089456011484 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1089456011485 active site 1089456011486 SAM binding site [chemical binding]; other site 1089456011487 homodimer interface [polypeptide binding]; other site 1089456011488 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 1089456011489 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456011490 nucleophilic elbow; other site 1089456011491 catalytic triad; other site 1089456011492 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1089456011493 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1089456011494 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1089456011495 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1089456011496 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 1089456011497 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1089456011498 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 1089456011499 Ligand binding site [chemical binding]; other site 1089456011500 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1089456011501 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1089456011502 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456011503 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1089456011504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1089456011505 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1089456011506 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 1089456011507 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1089456011508 FeS/SAM binding site; other site 1089456011509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456011510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456011511 WHG domain; Region: WHG; pfam13305 1089456011512 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1089456011513 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 1089456011514 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456011515 catalytic residue [active] 1089456011516 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1089456011517 active site 1089456011518 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 1089456011519 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1089456011520 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1089456011521 thymidylate kinase; Validated; Region: tmk; PRK00698 1089456011522 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 1089456011523 TMP-binding site; other site 1089456011524 ATP-binding site [chemical binding]; other site 1089456011525 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1089456011526 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1089456011527 dimerization interface [polypeptide binding]; other site 1089456011528 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1089456011529 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 1089456011530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456011531 catalytic residue [active] 1089456011532 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1089456011533 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 1089456011534 dimer interface [polypeptide binding]; other site 1089456011535 active site 1089456011536 acyl carrier protein; Provisional; Region: acpP; PRK00982 1089456011537 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1089456011538 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1089456011539 NAD(P) binding site [chemical binding]; other site 1089456011540 homotetramer interface [polypeptide binding]; other site 1089456011541 homodimer interface [polypeptide binding]; other site 1089456011542 active site 1089456011543 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1089456011544 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1089456011545 putative phosphate acyltransferase; Provisional; Region: PRK05331 1089456011546 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1089456011547 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1089456011548 Maf-like protein; Region: Maf; pfam02545 1089456011549 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 1089456011550 active site 1089456011551 dimer interface [polypeptide binding]; other site 1089456011552 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1089456011553 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1089456011554 tandem repeat interface [polypeptide binding]; other site 1089456011555 oligomer interface [polypeptide binding]; other site 1089456011556 active site residues [active] 1089456011557 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1089456011558 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 1089456011559 motif II; other site 1089456011560 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1089456011561 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 1089456011562 RNA binding surface [nucleotide binding]; other site 1089456011563 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1089456011564 active site 1089456011565 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1089456011566 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 1089456011567 homodimer interface [polypeptide binding]; other site 1089456011568 oligonucleotide binding site [chemical binding]; other site 1089456011569 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1089456011570 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456011571 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1089456011572 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1089456011573 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1089456011574 active site 1089456011575 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1089456011576 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1089456011577 Ligand binding site; other site 1089456011578 oligomer interface; other site 1089456011579 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1089456011580 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1089456011581 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1089456011582 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1089456011583 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1089456011584 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1089456011585 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1089456011586 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1089456011587 Competence protein; Region: Competence; pfam03772 1089456011588 Competence protein; Region: Competence; cl00471 1089456011589 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1089456011590 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1089456011591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1089456011592 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1089456011593 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1089456011594 FtsX-like permease family; Region: FtsX; pfam02687 1089456011595 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1089456011596 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1089456011597 Walker A/P-loop; other site 1089456011598 ATP binding site [chemical binding]; other site 1089456011599 Q-loop/lid; other site 1089456011600 ABC transporter signature motif; other site 1089456011601 Walker B; other site 1089456011602 D-loop; other site 1089456011603 H-loop/switch region; other site 1089456011604 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1089456011605 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1089456011606 FtsX-like permease family; Region: FtsX; pfam02687 1089456011607 PilZ domain; Region: PilZ; pfam07238 1089456011608 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1089456011609 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1089456011610 active site 1089456011611 catalytic site [active] 1089456011612 metal binding site [ion binding]; metal-binding site 1089456011613 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1089456011614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456011615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456011616 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1089456011617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1089456011618 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1089456011619 ApbE family; Region: ApbE; pfam02424 1089456011620 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1089456011621 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 1089456011622 catalytic loop [active] 1089456011623 iron binding site [ion binding]; other site 1089456011624 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 1089456011625 FAD binding pocket [chemical binding]; other site 1089456011626 FAD binding motif [chemical binding]; other site 1089456011627 phosphate binding motif [ion binding]; other site 1089456011628 beta-alpha-beta structure motif; other site 1089456011629 NAD binding pocket [chemical binding]; other site 1089456011630 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1089456011631 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1089456011632 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1089456011633 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1089456011634 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1089456011635 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1089456011636 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 1089456011637 E3 interaction surface; other site 1089456011638 lipoyl attachment site [posttranslational modification]; other site 1089456011639 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1089456011640 aromatic amino acid transporter; Provisional; Region: PRK10238 1089456011641 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1089456011642 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1089456011643 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1089456011644 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1089456011645 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1089456011646 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 1089456011647 ATP binding site [chemical binding]; other site 1089456011648 putative Mg++ binding site [ion binding]; other site 1089456011649 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 1089456011650 nucleotide binding region [chemical binding]; other site 1089456011651 ATP-binding site [chemical binding]; other site 1089456011652 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1089456011653 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1089456011654 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 1089456011655 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1089456011656 beta-hexosaminidase; Provisional; Region: PRK05337 1089456011657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456011658 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456011659 LexA repressor; Validated; Region: PRK00215 1089456011660 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1089456011661 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 1089456011662 Catalytic site [active] 1089456011663 SOS-response cell division inhibitor, blocks FtsZ ring formation [Cell division and chromosome partitioning]; Region: SulA; COG5404 1089456011664 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1089456011665 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 1089456011666 active site 1089456011667 interdomain interaction site; other site 1089456011668 putative metal-binding site [ion binding]; other site 1089456011669 nucleotide binding site [chemical binding]; other site 1089456011670 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 1089456011671 domain I; other site 1089456011672 DNA binding groove [nucleotide binding] 1089456011673 phosphate binding site [ion binding]; other site 1089456011674 domain II; other site 1089456011675 domain III; other site 1089456011676 nucleotide binding site [chemical binding]; other site 1089456011677 catalytic site [active] 1089456011678 domain IV; other site 1089456011679 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1089456011680 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1089456011681 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1089456011682 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1089456011683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4728 1089456011684 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1089456011685 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 1089456011686 dimer interface [polypeptide binding]; other site 1089456011687 active site 1089456011688 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1089456011689 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 1089456011690 substrate binding site [chemical binding]; other site 1089456011691 oxyanion hole (OAH) forming residues; other site 1089456011692 trimer interface [polypeptide binding]; other site 1089456011693 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1089456011694 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456011695 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1089456011696 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 1089456011697 Ligand Binding Site [chemical binding]; other site 1089456011698 ABC transporter ATPase component; Reviewed; Region: PRK11147 1089456011699 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456011700 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456011701 ABC transporter; Region: ABC_tran_2; pfam12848 1089456011702 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456011703 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1089456011704 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 1089456011705 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456011706 catalytic residue [active] 1089456011707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1089456011708 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1089456011709 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1089456011710 MOSC domain; Region: MOSC; pfam03473 1089456011711 lipid kinase; Reviewed; Region: PRK13054 1089456011712 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1089456011713 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1089456011714 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 1089456011715 putative N- and C-terminal domain interface [polypeptide binding]; other site 1089456011716 putative active site [active] 1089456011717 MgATP binding site [chemical binding]; other site 1089456011718 catalytic site [active] 1089456011719 metal binding site [ion binding]; metal-binding site 1089456011720 putative carbohydrate binding site [chemical binding]; other site 1089456011721 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1089456011722 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1089456011723 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456011724 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456011725 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456011726 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456011727 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1089456011728 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 1089456011729 dimer interface [polypeptide binding]; other site 1089456011730 putative functional site; other site 1089456011731 putative MPT binding site; other site 1089456011732 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 1089456011733 MPT binding site; other site 1089456011734 trimer interface [polypeptide binding]; other site 1089456011735 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1089456011736 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1089456011737 GTP binding site; other site 1089456011738 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1089456011739 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1089456011740 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456011741 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1089456011742 putative transcriptional regulator; Provisional; Region: PRK11640 1089456011743 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456011744 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456011745 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 1089456011746 putative C-terminal domain interface [polypeptide binding]; other site 1089456011747 putative GSH binding site (G-site) [chemical binding]; other site 1089456011748 putative dimer interface [polypeptide binding]; other site 1089456011749 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1089456011750 putative N-terminal domain interface [polypeptide binding]; other site 1089456011751 putative dimer interface [polypeptide binding]; other site 1089456011752 putative substrate binding pocket (H-site) [chemical binding]; other site 1089456011753 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 1089456011754 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456011755 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456011756 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1089456011757 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1089456011758 Predicted membrane protein [Function unknown]; Region: COG5393 1089456011759 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1089456011760 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456011761 Zn2+ binding site [ion binding]; other site 1089456011762 Mg2+ binding site [ion binding]; other site 1089456011763 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1089456011764 PAS domain; Region: PAS_9; pfam13426 1089456011765 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 1089456011766 dimer interface [polypeptide binding]; other site 1089456011767 phosphorylation site [posttranslational modification] 1089456011768 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456011769 ATP binding site [chemical binding]; other site 1089456011770 Mg2+ binding site [ion binding]; other site 1089456011771 G-X-G motif; other site 1089456011772 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456011773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456011774 active site 1089456011775 phosphorylation site [posttranslational modification] 1089456011776 intermolecular recognition site; other site 1089456011777 dimerization interface [polypeptide binding]; other site 1089456011778 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 1089456011779 putative binding surface; other site 1089456011780 active site 1089456011781 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456011782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456011783 active site 1089456011784 phosphorylation site [posttranslational modification] 1089456011785 intermolecular recognition site; other site 1089456011786 dimerization interface [polypeptide binding]; other site 1089456011787 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 1089456011788 DNA binding residues [nucleotide binding] 1089456011789 dimerization interface [polypeptide binding]; other site 1089456011790 hypothetical protein; Provisional; Region: PRK11702 1089456011791 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1089456011792 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1089456011793 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1089456011794 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1089456011795 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 1089456011796 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 1089456011797 S-adenosylmethionine binding site [chemical binding]; other site 1089456011798 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1089456011799 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 1089456011800 quinone interaction residues [chemical binding]; other site 1089456011801 active site 1089456011802 catalytic residues [active] 1089456011803 FMN binding site [chemical binding]; other site 1089456011804 substrate binding site [chemical binding]; other site 1089456011805 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1089456011806 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456011807 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456011808 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1089456011809 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1089456011810 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 1089456011811 putative active site [active] 1089456011812 Zn binding site [ion binding]; other site 1089456011813 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 1089456011814 non-specific DNA binding site [nucleotide binding]; other site 1089456011815 salt bridge; other site 1089456011816 sequence-specific DNA binding site [nucleotide binding]; other site 1089456011817 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1089456011818 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 1089456011819 non-specific DNA binding site [nucleotide binding]; other site 1089456011820 salt bridge; other site 1089456011821 sequence-specific DNA binding site [nucleotide binding]; other site 1089456011822 Predicted membrane protein [Function unknown]; Region: COG4267 1089456011823 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 1089456011824 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456011825 HEAT repeats; Region: HEAT_2; pfam13646 1089456011826 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1089456011827 GAF domain; Region: GAF_3; pfam13492 1089456011828 Tetratricopeptide repeat; Region: TPR_15; pfam13429 1089456011829 Uncharacterized conserved protein [Function unknown]; Region: COG3868 1089456011830 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 1089456011831 putative active site [active] 1089456011832 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1089456011833 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1089456011834 MoxR-like ATPases [General function prediction only]; Region: COG0714 1089456011835 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 1089456011836 Walker A motif; other site 1089456011837 ATP binding site [chemical binding]; other site 1089456011838 Walker B motif; other site 1089456011839 arginine finger; other site 1089456011840 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1089456011841 Protein of unknown function DUF58; Region: DUF58; pfam01882 1089456011842 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1089456011843 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1089456011844 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 1089456011845 metal ion-dependent adhesion site (MIDAS); other site 1089456011846 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1089456011847 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 1089456011848 TPR repeat; Region: TPR_11; pfam13414 1089456011849 binding surface 1089456011850 Oxygen tolerance; Region: BatD; pfam13584 1089456011851 chlorophyllase; Region: PLN00021 1089456011852 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1089456011853 catalytic triad [active] 1089456011854 putative active site [active] 1089456011855 Autotransporter beta-domain; Region: Autotransporter; smart00869 1089456011856 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456011857 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456011858 active site 1089456011859 phosphorylation site [posttranslational modification] 1089456011860 intermolecular recognition site; other site 1089456011861 dimerization interface [polypeptide binding]; other site 1089456011862 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 1089456011863 DNA binding site [nucleotide binding] 1089456011864 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456011865 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 1089456011866 dimer interface [polypeptide binding]; other site 1089456011867 phosphorylation site [posttranslational modification] 1089456011868 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456011869 ATP binding site [chemical binding]; other site 1089456011870 Mg2+ binding site [ion binding]; other site 1089456011871 G-X-G motif; other site 1089456011872 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1089456011873 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1089456011874 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1089456011875 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1089456011876 aminopeptidase N; Provisional; Region: pepN; PRK14015 1089456011877 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1089456011878 active site 1089456011879 Zn binding site [ion binding]; other site 1089456011880 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1089456011881 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1089456011882 Rhomboid family; Region: Rhomboid; pfam01694 1089456011883 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 1089456011884 active site 1089456011885 metal binding site [ion binding]; metal-binding site 1089456011886 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1089456011887 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1089456011888 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 1089456011889 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1089456011890 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456011891 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 1089456011892 active site 1089456011893 FMN binding site [chemical binding]; other site 1089456011894 2,4-decadienoyl-CoA binding site; other site 1089456011895 catalytic residue [active] 1089456011896 4Fe-4S cluster binding site [ion binding]; other site 1089456011897 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1089456011898 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1089456011899 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1089456011900 active site 1089456011901 catalytic triad [active] 1089456011902 dimer interface [polypeptide binding]; other site 1089456011903 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456011904 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456011905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456011906 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 1089456011907 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 1089456011908 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1089456011909 GspL periplasmic domain; Region: GspL_C; pfam12693 1089456011910 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 1089456011911 type II secretion system protein J; Region: gspJ; TIGR01711 1089456011912 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1089456011913 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1089456011914 type II secretion system protein I; Region: gspI; TIGR01707 1089456011915 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1089456011916 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1089456011917 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1089456011918 type II secretion system protein F; Region: GspF; TIGR02120 1089456011919 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456011920 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1089456011921 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1089456011922 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 1089456011923 Walker A motif; other site 1089456011924 ATP binding site [chemical binding]; other site 1089456011925 Walker B motif; other site 1089456011926 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1089456011927 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1089456011928 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456011929 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456011930 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1089456011931 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1089456011932 oxidoreductase; Validated; Region: PRK05717 1089456011933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456011934 NAD(P) binding site [chemical binding]; other site 1089456011935 active site 1089456011936 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1089456011937 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 1089456011938 homodimer interface [polypeptide binding]; other site 1089456011939 substrate-cofactor binding pocket; other site 1089456011940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456011941 catalytic residue [active] 1089456011942 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1089456011943 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 1089456011944 active site 1089456011945 tetramer interface [polypeptide binding]; other site 1089456011946 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456011947 active site 1089456011948 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1089456011949 Colicin V production protein; Region: Colicin_V; pfam02674 1089456011950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1089456011951 Sporulation related domain; Region: SPOR; pfam05036 1089456011952 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1089456011953 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1089456011954 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1089456011955 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1089456011956 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 1089456011957 active site 1089456011958 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1089456011959 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1089456011960 dimerization interface 3.5A [polypeptide binding]; other site 1089456011961 active site 1089456011962 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1089456011963 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456011964 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1089456011965 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1089456011966 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1089456011967 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1089456011968 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1089456011969 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1089456011970 tartrate dehydrogenase; Region: TTC; TIGR02089 1089456011971 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456011972 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 1089456011973 S-adenosylmethionine binding site [chemical binding]; other site 1089456011974 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1089456011975 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 1089456011976 substrate binding site [chemical binding]; other site 1089456011977 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1089456011978 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1089456011979 substrate binding site [chemical binding]; other site 1089456011980 ligand binding site [chemical binding]; other site 1089456011981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011983 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 1089456011984 dimerization interface [polypeptide binding]; other site 1089456011985 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 1089456011986 homotrimer interaction site [polypeptide binding]; other site 1089456011987 putative active site [active] 1089456011988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456011989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456011990 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 1089456011991 putative effector binding pocket; other site 1089456011992 putative dimerization interface [polypeptide binding]; other site 1089456011993 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 1089456011994 active site 1089456011995 catalytic triad [active] 1089456011996 oxyanion hole [active] 1089456011997 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1089456011998 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 1089456011999 putative dimer interface [polypeptide binding]; other site 1089456012000 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 1089456012001 dimer interface [polypeptide binding]; other site 1089456012002 ligand binding site [chemical binding]; other site 1089456012003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456012004 Coenzyme A binding pocket [chemical binding]; other site 1089456012005 short chain dehydrogenase; Provisional; Region: PRK06123 1089456012006 classical (c) SDRs; Region: SDR_c; cd05233 1089456012007 NAD(P) binding site [chemical binding]; other site 1089456012008 active site 1089456012009 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1089456012010 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 1089456012011 FMN binding site [chemical binding]; other site 1089456012012 active site 1089456012013 catalytic residues [active] 1089456012014 substrate binding site [chemical binding]; other site 1089456012015 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 1089456012016 active site 1089456012017 Entner-Doudoroff aldolase; Region: eda; TIGR01182 1089456012018 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1089456012019 active site 1089456012020 intersubunit interface [polypeptide binding]; other site 1089456012021 catalytic residue [active] 1089456012022 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456012023 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456012024 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456012025 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456012026 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1089456012027 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1089456012028 HIGH motif; other site 1089456012029 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1089456012030 active site 1089456012031 KMSKS motif; other site 1089456012032 LysR family transcriptional regulator; Provisional; Region: PRK14997 1089456012033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456012034 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 1089456012035 putative effector binding pocket; other site 1089456012036 dimerization interface [polypeptide binding]; other site 1089456012037 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1089456012038 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456012039 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456012040 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1089456012041 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456012042 putative substrate translocation pore; other site 1089456012043 excinuclease ABC subunit B; Provisional; Region: PRK05298 1089456012044 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 1089456012045 ATP binding site [chemical binding]; other site 1089456012046 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 1089456012047 nucleotide binding region [chemical binding]; other site 1089456012048 ATP-binding site [chemical binding]; other site 1089456012049 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1089456012050 UvrB/uvrC motif; Region: UVR; pfam02151 1089456012051 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1089456012052 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 1089456012053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456012054 homodimer interface [polypeptide binding]; other site 1089456012055 catalytic residue [active] 1089456012056 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1089456012057 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1089456012058 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1089456012059 NAD(P) binding site [chemical binding]; other site 1089456012060 homodimer interface [polypeptide binding]; other site 1089456012061 substrate binding site [chemical binding]; other site 1089456012062 active site 1089456012063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456012064 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1089456012065 NAD(P) binding site [chemical binding]; other site 1089456012066 active site 1089456012067 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1089456012068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456012069 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1089456012070 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 1089456012071 IHF dimer interface [polypeptide binding]; other site 1089456012072 IHF - DNA interface [nucleotide binding]; other site 1089456012073 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1089456012074 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 1089456012075 RNA binding site [nucleotide binding]; other site 1089456012076 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 1089456012077 RNA binding site [nucleotide binding]; other site 1089456012078 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 1089456012079 RNA binding site [nucleotide binding]; other site 1089456012080 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 1089456012081 RNA binding site [nucleotide binding]; other site 1089456012082 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 1089456012083 RNA binding site [nucleotide binding]; other site 1089456012084 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 1089456012085 RNA binding site [nucleotide binding]; other site 1089456012086 cytidylate kinase; Provisional; Region: cmk; PRK00023 1089456012087 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 1089456012088 CMP-binding site; other site 1089456012089 The sites determining sugar specificity; other site 1089456012090 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1089456012091 prephenate dehydrogenase; Validated; Region: PRK08507 1089456012092 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 1089456012093 hinge; other site 1089456012094 active site 1089456012095 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1089456012096 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 1089456012097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456012098 homodimer interface [polypeptide binding]; other site 1089456012099 catalytic residue [active] 1089456012100 Chorismate mutase type II; Region: CM_2; cl00693 1089456012101 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1089456012102 Prephenate dehydratase; Region: PDT; pfam00800 1089456012103 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 1089456012104 putative L-Phe binding site [chemical binding]; other site 1089456012105 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 1089456012106 homodimer interface [polypeptide binding]; other site 1089456012107 substrate-cofactor binding pocket; other site 1089456012108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456012109 catalytic residue [active] 1089456012110 DNA gyrase subunit A; Validated; Region: PRK05560 1089456012111 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 1089456012112 CAP-like domain; other site 1089456012113 active site 1089456012114 primary dimer interface [polypeptide binding]; other site 1089456012115 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1089456012116 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1089456012117 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1089456012118 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1089456012119 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1089456012120 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1089456012121 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1089456012122 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1089456012123 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1089456012124 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 1089456012125 active site 1089456012126 putative substrate binding pocket [chemical binding]; other site 1089456012127 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1089456012128 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 1089456012129 S-adenosylmethionine binding site [chemical binding]; other site 1089456012130 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1089456012131 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 1089456012132 motif II; other site 1089456012133 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1089456012134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456012135 NAD(P) binding site [chemical binding]; other site 1089456012136 active site 1089456012137 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1089456012138 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1089456012139 Bacterial transcriptional regulator; Region: IclR; pfam01614 1089456012140 agmatinase; Region: agmatinase; TIGR01230 1089456012141 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1089456012142 putative active site [active] 1089456012143 putative metal binding site [ion binding]; other site 1089456012144 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 1089456012145 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456012146 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456012147 metal binding site [ion binding]; metal-binding site 1089456012148 active site 1089456012149 I-site; other site 1089456012150 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1089456012151 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 1089456012152 RNA binding surface [nucleotide binding]; other site 1089456012153 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1089456012154 probable active site [active] 1089456012155 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 1089456012156 nudix motif; other site 1089456012157 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1089456012158 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1089456012159 active site 1089456012160 intersubunit interface [polypeptide binding]; other site 1089456012161 catalytic residue [active] 1089456012162 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1089456012163 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 1089456012164 putative active site [active] 1089456012165 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1089456012166 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1089456012167 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1089456012168 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1089456012169 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1089456012170 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 1089456012171 putative active site [active] 1089456012172 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1089456012173 active site 1089456012174 phosphate binding residues; other site 1089456012175 catalytic residues [active] 1089456012176 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1089456012177 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1089456012178 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1089456012179 Walker A/P-loop; other site 1089456012180 ATP binding site [chemical binding]; other site 1089456012181 Q-loop/lid; other site 1089456012182 ABC transporter signature motif; other site 1089456012183 Walker B; other site 1089456012184 D-loop; other site 1089456012185 H-loop/switch region; other site 1089456012186 TOBE domain; Region: TOBE; pfam03459 1089456012187 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1089456012188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456012189 dimer interface [polypeptide binding]; other site 1089456012190 conserved gate region; other site 1089456012191 putative PBP binding loops; other site 1089456012192 ABC-ATPase subunit interface; other site 1089456012193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456012194 dimer interface [polypeptide binding]; other site 1089456012195 conserved gate region; other site 1089456012196 putative PBP binding loops; other site 1089456012197 ABC-ATPase subunit interface; other site 1089456012198 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1089456012199 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1089456012200 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1089456012201 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456012202 ATP binding site [chemical binding]; other site 1089456012203 Mg2+ binding site [ion binding]; other site 1089456012204 G-X-G motif; other site 1089456012205 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456012206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456012207 active site 1089456012208 phosphorylation site [posttranslational modification] 1089456012209 intermolecular recognition site; other site 1089456012210 dimerization interface [polypeptide binding]; other site 1089456012211 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 1089456012212 DNA binding site [nucleotide binding] 1089456012213 glucokinase, proteobacterial type; Region: glk; TIGR00749 1089456012214 glucokinase; Provisional; Region: glk; PRK00292 1089456012215 phosphogluconate dehydratase; Validated; Region: PRK09054 1089456012216 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1089456012217 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1089456012218 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1089456012219 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1089456012220 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1089456012221 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1089456012222 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1089456012223 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1089456012224 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1089456012225 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1089456012226 active site 1089456012227 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1089456012228 intracellular septation protein A; Reviewed; Region: PRK00259 1089456012229 YciI-like protein; Reviewed; Region: PRK11370 1089456012230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456012231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456012232 active site 1089456012233 phosphorylation site [posttranslational modification] 1089456012234 intermolecular recognition site; other site 1089456012235 dimerization interface [polypeptide binding]; other site 1089456012236 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 1089456012237 DNA binding site [nucleotide binding] 1089456012238 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 1089456012239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456012240 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 1089456012241 dimerization interface [polypeptide binding]; other site 1089456012242 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456012243 ATP binding site [chemical binding]; other site 1089456012244 Mg2+ binding site [ion binding]; other site 1089456012245 G-X-G motif; other site 1089456012246 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 1089456012247 putative FMN binding site [chemical binding]; other site 1089456012248 Flagellin N-methylase; Region: FliB; pfam03692 1089456012249 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1089456012250 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1089456012251 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1089456012252 Permease; Region: Permease; pfam02405 1089456012253 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1089456012254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456012255 Walker A/P-loop; other site 1089456012256 ATP binding site [chemical binding]; other site 1089456012257 Q-loop/lid; other site 1089456012258 ABC transporter signature motif; other site 1089456012259 Walker B; other site 1089456012260 D-loop; other site 1089456012261 H-loop/switch region; other site 1089456012262 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1089456012263 mce related protein; Region: MCE; pfam02470 1089456012264 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1089456012265 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456012266 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456012267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456012268 Predicted membrane protein [Function unknown]; Region: COG4323 1089456012269 MASE2 domain; Region: MASE2; pfam05230 1089456012270 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1089456012271 cyclase homology domain; Region: CHD; cd07302 1089456012272 nucleotidyl binding site; other site 1089456012273 metal binding site [ion binding]; metal-binding site 1089456012274 dimer interface [polypeptide binding]; other site 1089456012275 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456012276 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 1089456012277 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1089456012278 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1089456012279 putative active site [active] 1089456012280 putative metal binding site [ion binding]; other site 1089456012281 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456012282 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456012283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456012284 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 1089456012285 dimer interface [polypeptide binding]; other site 1089456012286 putative tRNA-binding site [nucleotide binding]; other site 1089456012287 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1089456012288 EamA-like transporter family; Region: EamA; pfam00892 1089456012289 transcriptional regulator; Provisional; Region: PRK10632 1089456012290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456012291 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 1089456012292 putative effector binding pocket; other site 1089456012293 putative dimerization interface [polypeptide binding]; other site 1089456012294 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1089456012295 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456012296 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1089456012297 glutathionine S-transferase; Provisional; Region: PRK10542 1089456012298 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 1089456012299 C-terminal domain interface [polypeptide binding]; other site 1089456012300 GSH binding site (G-site) [chemical binding]; other site 1089456012301 dimer interface [polypeptide binding]; other site 1089456012302 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1089456012303 dimer interface [polypeptide binding]; other site 1089456012304 N-terminal domain interface [polypeptide binding]; other site 1089456012305 substrate binding pocket (H-site) [chemical binding]; other site 1089456012306 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1089456012307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456012308 NAD(P) binding site [chemical binding]; other site 1089456012309 active site 1089456012310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456012311 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1089456012312 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 1089456012313 lipoyl attachment site [posttranslational modification]; other site 1089456012314 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 1089456012315 catalytic residues [active] 1089456012316 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1089456012317 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456012318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456012319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456012320 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 1089456012321 dimerization interface [polypeptide binding]; other site 1089456012322 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1089456012323 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456012324 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1089456012325 catalytic site [active] 1089456012326 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1089456012327 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 1089456012328 substrate binding site [chemical binding]; other site 1089456012329 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1089456012330 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1089456012331 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1089456012332 Walker A/P-loop; other site 1089456012333 ATP binding site [chemical binding]; other site 1089456012334 Q-loop/lid; other site 1089456012335 ABC transporter signature motif; other site 1089456012336 Walker B; other site 1089456012337 D-loop; other site 1089456012338 H-loop/switch region; other site 1089456012339 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1089456012340 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1089456012341 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1089456012342 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 1089456012343 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1089456012344 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1089456012345 active site 1089456012346 catalytic site [active] 1089456012347 substrate binding site [chemical binding]; other site 1089456012348 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1089456012349 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 1089456012350 ligand binding site [chemical binding]; other site 1089456012351 flexible hinge region; other site 1089456012352 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 1089456012353 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1089456012354 metal binding triad; other site 1089456012355 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1089456012356 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1089456012357 Na binding site [ion binding]; other site 1089456012358 Predicted membrane protein [Function unknown]; Region: COG3162 1089456012359 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1089456012360 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1089456012361 Predicted membrane protein [Function unknown]; Region: COG3205 1089456012362 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456012363 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1089456012364 Pirin-related protein [General function prediction only]; Region: COG1741 1089456012365 Pirin; Region: Pirin; pfam02678 1089456012366 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1089456012367 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1089456012368 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1089456012369 active site 1089456012370 nucleophile elbow; other site 1089456012371 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1089456012372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1089456012373 putative acyl-acceptor binding pocket; other site 1089456012374 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1089456012375 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1089456012376 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1089456012377 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1089456012378 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 1089456012379 Switch I; other site 1089456012380 Switch II; other site 1089456012381 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1089456012382 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1089456012383 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1089456012384 active site 1089456012385 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1089456012386 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1089456012387 active site 1089456012388 metal binding site [ion binding]; metal-binding site 1089456012389 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1089456012390 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1089456012391 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456012392 DNA-binding site [nucleotide binding]; DNA binding site 1089456012393 transcriptional regulator protein; Region: phnR; TIGR03337 1089456012394 UTRA domain; Region: UTRA; pfam07702 1089456012395 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1089456012396 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1089456012397 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1089456012398 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1089456012399 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456012400 dimer interface [polypeptide binding]; other site 1089456012401 conserved gate region; other site 1089456012402 putative PBP binding loops; other site 1089456012403 ABC-ATPase subunit interface; other site 1089456012404 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1089456012405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456012406 dimer interface [polypeptide binding]; other site 1089456012407 conserved gate region; other site 1089456012408 putative PBP binding loops; other site 1089456012409 ABC-ATPase subunit interface; other site 1089456012410 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1089456012411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456012412 Walker A/P-loop; other site 1089456012413 ATP binding site [chemical binding]; other site 1089456012414 Q-loop/lid; other site 1089456012415 ABC transporter signature motif; other site 1089456012416 Walker B; other site 1089456012417 D-loop; other site 1089456012418 H-loop/switch region; other site 1089456012419 TOBE domain; Region: TOBE_2; pfam08402 1089456012420 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1089456012421 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1089456012422 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1089456012423 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1089456012424 NAD(P) binding site [chemical binding]; other site 1089456012425 carboxy-terminal protease; Provisional; Region: PRK11186 1089456012426 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1089456012427 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 1089456012428 protein binding site [polypeptide binding]; other site 1089456012429 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1089456012430 Catalytic dyad [active] 1089456012431 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1089456012432 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 1089456012433 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 1089456012434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456012435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456012436 metal binding site [ion binding]; metal-binding site 1089456012437 active site 1089456012438 I-site; other site 1089456012439 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 1089456012440 non-specific DNA binding site [nucleotide binding]; other site 1089456012441 salt bridge; other site 1089456012442 sequence-specific DNA binding site [nucleotide binding]; other site 1089456012443 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1089456012444 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 1089456012445 substrate binding pocket [chemical binding]; other site 1089456012446 membrane-bound complex binding site; other site 1089456012447 hinge residues; other site 1089456012448 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1089456012449 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1089456012450 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1089456012451 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1089456012452 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1089456012453 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1089456012454 Sodium Bile acid symporter family; Region: SBF; pfam01758 1089456012455 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1089456012456 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 1089456012457 DNA-binding site [nucleotide binding]; DNA binding site 1089456012458 RNA-binding motif; other site 1089456012459 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456012460 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456012461 putative substrate translocation pore; other site 1089456012462 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1089456012463 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1089456012464 putative acyl-acceptor binding pocket; other site 1089456012465 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1089456012466 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 1089456012467 N-terminal plug; other site 1089456012468 ligand-binding site [chemical binding]; other site 1089456012469 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456012470 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456012471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456012472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456012473 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1089456012474 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1089456012475 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1089456012476 Na binding site [ion binding]; other site 1089456012477 PAS fold; Region: PAS_7; pfam12860 1089456012478 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456012479 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 1089456012480 dimer interface [polypeptide binding]; other site 1089456012481 phosphorylation site [posttranslational modification] 1089456012482 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456012483 ATP binding site [chemical binding]; other site 1089456012484 Mg2+ binding site [ion binding]; other site 1089456012485 G-X-G motif; other site 1089456012486 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456012487 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456012488 active site 1089456012489 phosphorylation site [posttranslational modification] 1089456012490 intermolecular recognition site; other site 1089456012491 dimerization interface [polypeptide binding]; other site 1089456012492 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1089456012493 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 1089456012494 ATP binding site [chemical binding]; other site 1089456012495 putative Mg++ binding site [ion binding]; other site 1089456012496 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 1089456012497 nucleotide binding region [chemical binding]; other site 1089456012498 ATP-binding site [chemical binding]; other site 1089456012499 DEAD/H associated; Region: DEAD_assoc; pfam08494 1089456012500 Uncharacterized conserved protein [Function unknown]; Region: COG1742 1089456012501 short chain dehydrogenase; Provisional; Region: PRK05650 1089456012502 classical (c) SDRs; Region: SDR_c; cd05233 1089456012503 NAD(P) binding site [chemical binding]; other site 1089456012504 active site 1089456012505 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1089456012506 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1089456012507 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1089456012508 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1089456012509 Predicted membrane protein [Function unknown]; Region: COG2259 1089456012510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1089456012511 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1089456012512 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1089456012513 Putative zinc-finger; Region: zf-HC2; pfam13490 1089456012514 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1089456012515 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456012516 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 1089456012517 DNA binding residues [nucleotide binding] 1089456012518 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1089456012519 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 1089456012520 dimer interface [polypeptide binding]; other site 1089456012521 active site 1089456012522 CoA binding pocket [chemical binding]; other site 1089456012523 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1089456012524 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 1089456012525 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1089456012526 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 1089456012527 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456012528 catalytic triad [active] 1089456012529 conserved cis-peptide bond; other site 1089456012530 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1089456012531 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1089456012532 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1089456012533 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1089456012534 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1089456012535 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456012536 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456012537 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1089456012538 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 1089456012539 HIT family signature motif; other site 1089456012540 catalytic residue [active] 1089456012541 alkaline phosphatase; Provisional; Region: PRK10518 1089456012542 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 1089456012543 active site 1089456012544 dimer interface [polypeptide binding]; other site 1089456012545 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1089456012546 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 1089456012547 ATP binding site [chemical binding]; other site 1089456012548 putative Mg++ binding site [ion binding]; other site 1089456012549 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 1089456012550 nucleotide binding region [chemical binding]; other site 1089456012551 ATP-binding site [chemical binding]; other site 1089456012552 Helicase associated domain (HA2); Region: HA2; pfam04408 1089456012553 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1089456012554 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1089456012555 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1089456012556 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1089456012557 acyl-activating enzyme (AAE) consensus motif; other site 1089456012558 putative AMP binding site [chemical binding]; other site 1089456012559 putative active site [active] 1089456012560 putative CoA binding site [chemical binding]; other site 1089456012561 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1089456012562 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1089456012563 acyl-activating enzyme (AAE) consensus motif; other site 1089456012564 putative AMP binding site [chemical binding]; other site 1089456012565 putative active site [active] 1089456012566 putative CoA binding site [chemical binding]; other site 1089456012567 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1089456012568 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456012569 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456012570 (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 1089456012571 dimer interaction site [polypeptide binding]; other site 1089456012572 substrate-binding tunnel; other site 1089456012573 active site 1089456012574 catalytic site [active] 1089456012575 substrate binding site [chemical binding]; other site 1089456012576 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1089456012577 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 1089456012578 HlyD family secretion protein; Region: HlyD; pfam00529 1089456012579 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456012580 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456012581 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1089456012582 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1089456012583 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 1089456012584 ATP-dependent helicase HepA; Validated; Region: PRK04914 1089456012585 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 1089456012586 ATP binding site [chemical binding]; other site 1089456012587 putative Mg++ binding site [ion binding]; other site 1089456012588 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 1089456012589 nucleotide binding region [chemical binding]; other site 1089456012590 ATP-binding site [chemical binding]; other site 1089456012591 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 1089456012592 Ligand Binding Site [chemical binding]; other site 1089456012593 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1089456012594 Sulfatase; Region: Sulfatase; pfam00884 1089456012595 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1089456012596 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1089456012597 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1089456012598 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456012599 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456012600 metal binding site [ion binding]; metal-binding site 1089456012601 active site 1089456012602 I-site; other site 1089456012603 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 1089456012604 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1089456012605 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1089456012606 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1089456012607 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 1089456012608 substrate binding pocket [chemical binding]; other site 1089456012609 membrane-bound complex binding site; other site 1089456012610 hinge residues; other site 1089456012611 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1089456012612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456012613 Walker A/P-loop; other site 1089456012614 ATP binding site [chemical binding]; other site 1089456012615 Q-loop/lid; other site 1089456012616 ABC transporter signature motif; other site 1089456012617 Walker B; other site 1089456012618 D-loop; other site 1089456012619 H-loop/switch region; other site 1089456012620 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1089456012621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456012622 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1089456012623 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1089456012624 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1089456012625 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1089456012626 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1089456012627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1089456012628 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456012629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456012630 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 1089456012631 putative substrate binding pocket [chemical binding]; other site 1089456012632 putative dimerization interface [polypeptide binding]; other site 1089456012633 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 1089456012634 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1089456012635 DNA binding residues [nucleotide binding] 1089456012636 putative dimer interface [polypeptide binding]; other site 1089456012637 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 1089456012638 active site 1089456012639 short chain dehydrogenase; Validated; Region: PRK05855 1089456012640 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456012641 classical (c) SDRs; Region: SDR_c; cd05233 1089456012642 NAD(P) binding site [chemical binding]; other site 1089456012643 active site 1089456012644 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1089456012645 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1089456012646 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1089456012647 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1089456012648 oligomer interface [polypeptide binding]; other site 1089456012649 active site residues [active] 1089456012650 Condensation domain; Region: Condensation; pfam00668 1089456012651 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456012652 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1089456012653 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456012654 acyl-activating enzyme (AAE) consensus motif; other site 1089456012655 AMP binding site [chemical binding]; other site 1089456012656 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456012657 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1089456012658 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456012659 acyl-activating enzyme (AAE) consensus motif; other site 1089456012660 AMP binding site [chemical binding]; other site 1089456012661 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456012662 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1089456012663 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1089456012664 Condensation domain; Region: Condensation; pfam00668 1089456012665 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1089456012666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456012667 short chain dehydrogenase; Provisional; Region: PRK06914 1089456012668 NAD(P) binding site [chemical binding]; other site 1089456012669 active site 1089456012670 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1089456012671 Cytochrome P450; Region: p450; cl12078 1089456012672 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1089456012673 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1089456012674 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 1089456012675 dimer interface [polypeptide binding]; other site 1089456012676 active site 1089456012677 CoA binding pocket [chemical binding]; other site 1089456012678 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1089456012679 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 1089456012680 S-adenosylmethionine binding site [chemical binding]; other site 1089456012681 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1089456012682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456012683 putative substrate translocation pore; other site 1089456012684 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1089456012685 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1089456012686 NADP binding site [chemical binding]; other site 1089456012687 homopentamer interface [polypeptide binding]; other site 1089456012688 substrate binding site [chemical binding]; other site 1089456012689 active site 1089456012690 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1089456012691 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1089456012692 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1089456012693 active site 1089456012694 nucleophile elbow; other site 1089456012695 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1089456012696 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1089456012697 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1089456012698 Surface antigen; Region: Bac_surface_Ag; pfam01103 1089456012699 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1089456012700 FimV N-terminal domain; Region: FimV_core; TIGR03505 1089456012701 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1089456012702 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1089456012703 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1089456012704 MarR family; Region: MarR_2; pfam12802 1089456012705 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 1089456012706 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456012707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456012708 metal binding site [ion binding]; metal-binding site 1089456012709 active site 1089456012710 I-site; other site 1089456012711 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1089456012712 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 1089456012713 ATP binding site [chemical binding]; other site 1089456012714 putative Mg++ binding site [ion binding]; other site 1089456012715 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 1089456012716 nucleotide binding region [chemical binding]; other site 1089456012717 ATP-binding site [chemical binding]; other site 1089456012718 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1089456012719 HRDC domain; Region: HRDC; pfam00570 1089456012720 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 1089456012721 putative binding surface; other site 1089456012722 active site 1089456012723 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456012724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456012725 active site 1089456012726 phosphorylation site [posttranslational modification] 1089456012727 intermolecular recognition site; other site 1089456012728 dimerization interface [polypeptide binding]; other site 1089456012729 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1089456012730 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1089456012731 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1089456012732 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 1089456012733 anti sigma factor interaction site; other site 1089456012734 regulatory phosphorylation site [posttranslational modification]; other site 1089456012735 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1089456012736 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1089456012737 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 1089456012738 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1089456012739 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456012740 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456012741 active site 1089456012742 phosphorylation site [posttranslational modification] 1089456012743 intermolecular recognition site; other site 1089456012744 dimerization interface [polypeptide binding]; other site 1089456012745 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1089456012746 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1089456012747 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1089456012748 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1089456012749 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 1089456012750 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1089456012751 Flagellar regulator YcgR; Region: YcgR; pfam07317 1089456012752 PilZ domain; Region: PilZ; pfam07238 1089456012753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3222 1089456012754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456012755 putative substrate translocation pore; other site 1089456012756 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1089456012757 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456012758 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 1089456012759 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1089456012760 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456012761 catalytic residue [active] 1089456012762 EamA-like transporter family; Region: EamA; cl17759 1089456012763 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1089456012764 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1089456012765 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456012766 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456012767 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 1089456012768 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1089456012769 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1089456012770 ANTAR domain; Region: ANTAR; pfam03861 1089456012771 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 1089456012772 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1089456012773 ligand binding site [chemical binding]; other site 1089456012774 regulator interaction site; other site 1089456012775 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1089456012776 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 1089456012777 Walker A motif; other site 1089456012778 ATP binding site [chemical binding]; other site 1089456012779 Walker B motif; other site 1089456012780 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1089456012781 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1089456012782 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1089456012783 multimer interface [polypeptide binding]; other site 1089456012784 active site 1089456012785 catalytic triad [active] 1089456012786 dimer interface [polypeptide binding]; other site 1089456012787 hypothetical protein; Provisional; Region: PRK10040 1089456012788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1089456012789 Transposase; Region: HTH_Tnp_1; pfam01527 1089456012790 HTH-like domain; Region: HTH_21; pfam13276 1089456012791 Integrase core domain; Region: rve; pfam00665 1089456012792 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1089456012793 Integrase core domain; Region: rve_3; pfam13683 1089456012794 RHS Repeat; Region: RHS_repeat; pfam05593 1089456012795 RHS Repeat; Region: RHS_repeat; pfam05593 1089456012796 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456012797 RHS Repeat; Region: RHS_repeat; pfam05593 1089456012798 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1089456012799 RHS Repeat; Region: RHS_repeat; pfam05593 1089456012800 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1089456012801 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456012802 RHS Repeat; Region: RHS_repeat; pfam05593 1089456012803 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1089456012804 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456012805 Coenzyme A binding pocket [chemical binding]; other site 1089456012806 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1089456012807 putative hydrolase; Provisional; Region: PRK02113 1089456012808 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 1089456012809 Guanylate kinase; Region: Guanylate_kin; pfam00625 1089456012810 active site 1089456012811 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1089456012812 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 1089456012813 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 1089456012814 active site 1089456012815 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1089456012816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456012817 Walker A/P-loop; other site 1089456012818 ATP binding site [chemical binding]; other site 1089456012819 Q-loop/lid; other site 1089456012820 ABC transporter signature motif; other site 1089456012821 Walker B; other site 1089456012822 D-loop; other site 1089456012823 H-loop/switch region; other site 1089456012824 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1089456012825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456012826 Walker A/P-loop; other site 1089456012827 ATP binding site [chemical binding]; other site 1089456012828 Q-loop/lid; other site 1089456012829 ABC transporter signature motif; other site 1089456012830 Walker B; other site 1089456012831 D-loop; other site 1089456012832 H-loop/switch region; other site 1089456012833 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1089456012834 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 1089456012835 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 1089456012836 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 1089456012837 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1089456012838 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1089456012839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456012840 DNA-binding site [nucleotide binding]; DNA binding site 1089456012841 UTRA domain; Region: UTRA; pfam07702 1089456012842 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1089456012843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456012844 dimer interface [polypeptide binding]; other site 1089456012845 conserved gate region; other site 1089456012846 ABC-ATPase subunit interface; other site 1089456012847 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1089456012848 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1089456012849 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1089456012850 Walker A/P-loop; other site 1089456012851 ATP binding site [chemical binding]; other site 1089456012852 Q-loop/lid; other site 1089456012853 ABC transporter signature motif; other site 1089456012854 Walker B; other site 1089456012855 D-loop; other site 1089456012856 H-loop/switch region; other site 1089456012857 Arc-like DNA binding domain; Region: Arc; pfam03869 1089456012858 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1089456012859 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 1089456012860 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1089456012861 NADP binding site [chemical binding]; other site 1089456012862 active site 1089456012863 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1089456012864 homodimer interaction site [polypeptide binding]; other site 1089456012865 cofactor binding site; other site 1089456012866 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1089456012867 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 1089456012868 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456012869 active site 1089456012870 metal binding site [ion binding]; metal-binding site 1089456012871 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1089456012872 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1089456012873 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1089456012874 nitrous-oxide reductase; Validated; Region: PRK02888 1089456012875 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1089456012876 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1089456012877 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1089456012878 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1089456012879 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1089456012880 Walker A/P-loop; other site 1089456012881 ATP binding site [chemical binding]; other site 1089456012882 Q-loop/lid; other site 1089456012883 ABC transporter signature motif; other site 1089456012884 Walker B; other site 1089456012885 D-loop; other site 1089456012886 H-loop/switch region; other site 1089456012887 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1089456012888 NosL; Region: NosL; cl01769 1089456012889 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1089456012890 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 1089456012891 FAD binding pocket [chemical binding]; other site 1089456012892 FAD binding motif [chemical binding]; other site 1089456012893 phosphate binding motif [ion binding]; other site 1089456012894 beta-alpha-beta structure motif; other site 1089456012895 NAD binding pocket [chemical binding]; other site 1089456012896 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1089456012897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456012898 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 1089456012899 putative dimerization interface [polypeptide binding]; other site 1089456012900 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1089456012901 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1089456012902 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1089456012903 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1089456012904 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1089456012905 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1089456012906 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456012907 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456012908 Predicted membrane protein [Function unknown]; Region: COG3223 1089456012909 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1089456012910 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1089456012911 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1089456012912 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456012913 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456012914 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1089456012915 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1089456012916 Walker A/P-loop; other site 1089456012917 ATP binding site [chemical binding]; other site 1089456012918 Q-loop/lid; other site 1089456012919 ABC transporter signature motif; other site 1089456012920 Walker B; other site 1089456012921 D-loop; other site 1089456012922 H-loop/switch region; other site 1089456012923 Heme-binding protein A (HasA); Region: HasA; pfam06438 1089456012924 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456012925 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1089456012926 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 1089456012927 N-terminal plug; other site 1089456012928 ligand-binding site [chemical binding]; other site 1089456012929 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456012930 FecR protein; Region: FecR; pfam04773 1089456012931 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1089456012932 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456012933 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 1089456012934 DNA binding residues [nucleotide binding] 1089456012935 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1089456012936 DNA damage-inducible gene in SOS regulon, dependent on cyclic AMP and H-NS , pqiA [General function prediction only]; Region: COG3141 1089456012937 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 1089456012938 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1089456012939 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 1089456012940 E3 interaction surface; other site 1089456012941 lipoyl attachment site [posttranslational modification]; other site 1089456012942 e3 binding domain; Region: E3_binding; pfam02817 1089456012943 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1089456012944 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1089456012945 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 1089456012946 alpha subunit interface [polypeptide binding]; other site 1089456012947 TPP binding site [chemical binding]; other site 1089456012948 heterodimer interface [polypeptide binding]; other site 1089456012949 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1089456012950 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1089456012951 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 1089456012952 TPP-binding site [chemical binding]; other site 1089456012953 tetramer interface [polypeptide binding]; other site 1089456012954 heterodimer interface [polypeptide binding]; other site 1089456012955 phosphorylation loop region [posttranslational modification] 1089456012956 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1089456012957 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1089456012958 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1089456012959 NAD binding site [chemical binding]; other site 1089456012960 Phe binding site; other site 1089456012961 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1089456012962 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1089456012963 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1089456012964 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 1089456012965 DNA binding residues [nucleotide binding] 1089456012966 dimerization interface [polypeptide binding]; other site 1089456012967 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1089456012968 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1089456012969 SnoaL-like domain; Region: SnoaL_2; pfam12680 1089456012970 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456012971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456012972 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456012973 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456012974 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1089456012975 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1089456012976 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 1089456012977 substrate binding site [chemical binding]; other site 1089456012978 oxyanion hole (OAH) forming residues; other site 1089456012979 trimer interface [polypeptide binding]; other site 1089456012980 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1089456012981 homodimer interface [polypeptide binding]; other site 1089456012982 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1089456012983 NAD binding site [chemical binding]; other site 1089456012984 active site 1089456012985 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456012986 aldolase II superfamily protein; Provisional; Region: PRK07044 1089456012987 intersubunit interface [polypeptide binding]; other site 1089456012988 active site 1089456012989 Zn2+ binding site [ion binding]; other site 1089456012990 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1089456012991 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1089456012992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456012993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456012994 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1089456012995 putative dimerization interface [polypeptide binding]; other site 1089456012996 flavodoxin; Provisional; Region: PRK05723 1089456012997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1089456012998 dihydromonapterin reductase; Provisional; Region: PRK06483 1089456012999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456013000 NAD(P) binding site [chemical binding]; other site 1089456013001 active site 1089456013002 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 1089456013003 homodecamer interface [polypeptide binding]; other site 1089456013004 GTP cyclohydrolase I; Provisional; Region: PLN03044 1089456013005 active site 1089456013006 putative catalytic site residues [active] 1089456013007 zinc binding site [ion binding]; other site 1089456013008 GTP-CH-I/GFRP interaction surface; other site 1089456013009 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 1089456013010 homooctamer interface [polypeptide binding]; other site 1089456013011 active site 1089456013012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1089456013013 HopJ type III effector protein; Region: HopJ; pfam08888 1089456013014 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1089456013015 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1089456013016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456013017 Walker A/P-loop; other site 1089456013018 ATP binding site [chemical binding]; other site 1089456013019 Q-loop/lid; other site 1089456013020 ABC transporter signature motif; other site 1089456013021 Walker B; other site 1089456013022 D-loop; other site 1089456013023 H-loop/switch region; other site 1089456013024 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1089456013025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456013026 dimer interface [polypeptide binding]; other site 1089456013027 conserved gate region; other site 1089456013028 putative PBP binding loops; other site 1089456013029 ABC-ATPase subunit interface; other site 1089456013030 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1089456013031 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 1089456013032 active site 1089456013033 dimer interface [polypeptide binding]; other site 1089456013034 non-prolyl cis peptide bond; other site 1089456013035 insertion regions; other site 1089456013036 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1089456013037 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 1089456013038 substrate binding pocket [chemical binding]; other site 1089456013039 membrane-bound complex binding site; other site 1089456013040 hinge residues; other site 1089456013041 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1089456013042 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1089456013043 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1089456013044 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1089456013045 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1089456013046 Walker A/P-loop; other site 1089456013047 ATP binding site [chemical binding]; other site 1089456013048 Q-loop/lid; other site 1089456013049 ABC transporter signature motif; other site 1089456013050 Walker B; other site 1089456013051 D-loop; other site 1089456013052 H-loop/switch region; other site 1089456013053 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1089456013054 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456013055 dimer interface [polypeptide binding]; other site 1089456013056 conserved gate region; other site 1089456013057 putative PBP binding loops; other site 1089456013058 ABC-ATPase subunit interface; other site 1089456013059 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1089456013060 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 1089456013061 substrate binding pocket [chemical binding]; other site 1089456013062 membrane-bound complex binding site; other site 1089456013063 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1089456013064 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 1089456013065 dimer interface [polypeptide binding]; other site 1089456013066 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1089456013067 catalytic triad [active] 1089456013068 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 1089456013069 malate:quinone oxidoreductase; Validated; Region: PRK05257 1089456013070 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1089456013071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 1089456013072 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1089456013073 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 1089456013074 dimer interface [polypeptide binding]; other site 1089456013075 active site 1089456013076 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1089456013077 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1089456013078 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1089456013079 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1089456013080 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1089456013081 Predicted permeases [General function prediction only]; Region: COG0730 1089456013082 MarR family; Region: MarR_2; cl17246 1089456013083 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1089456013084 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 1089456013085 active site 1089456013086 dimer interface [polypeptide binding]; other site 1089456013087 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 1089456013088 Ligand Binding Site [chemical binding]; other site 1089456013089 Molecular Tunnel; other site 1089456013090 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1089456013091 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456013092 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456013093 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1089456013094 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1089456013095 putative oligomer interface [polypeptide binding]; other site 1089456013096 putative active site [active] 1089456013097 metal binding site [ion binding]; metal-binding site 1089456013098 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1089456013099 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1089456013100 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1089456013101 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 1089456013102 dimer interface [polypeptide binding]; other site 1089456013103 phosphorylation site [posttranslational modification] 1089456013104 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456013105 ATP binding site [chemical binding]; other site 1089456013106 Mg2+ binding site [ion binding]; other site 1089456013107 G-X-G motif; other site 1089456013108 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456013109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456013110 active site 1089456013111 phosphorylation site [posttranslational modification] 1089456013112 intermolecular recognition site; other site 1089456013113 dimerization interface [polypeptide binding]; other site 1089456013114 hypothetical protein; Provisional; Region: PRK00304 1089456013115 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 1089456013116 Transmembrane secretion effector; Region: MFS_3; pfam05977 1089456013117 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013118 putative substrate translocation pore; other site 1089456013119 helicase 45; Provisional; Region: PTZ00424 1089456013120 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 1089456013121 ATP binding site [chemical binding]; other site 1089456013122 Mg++ binding site [ion binding]; other site 1089456013123 motif III; other site 1089456013124 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 1089456013125 nucleotide binding region [chemical binding]; other site 1089456013126 ATP-binding site [chemical binding]; other site 1089456013127 benzoate transport; Region: 2A0115; TIGR00895 1089456013128 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013129 putative substrate translocation pore; other site 1089456013130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013131 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1089456013132 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456013133 RibD C-terminal domain; Region: RibD_C; cl17279 1089456013134 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1089456013135 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 1089456013136 nudix motif; other site 1089456013137 malate dehydrogenase; Provisional; Region: PRK13529 1089456013138 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1089456013139 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1089456013140 NAD(P) binding site [chemical binding]; other site 1089456013141 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1089456013142 NlpC/P60 family; Region: NLPC_P60; pfam00877 1089456013143 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1089456013144 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1089456013145 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1089456013146 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1089456013147 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 1089456013148 substrate binding pocket [chemical binding]; other site 1089456013149 membrane-bound complex binding site; other site 1089456013150 hinge residues; other site 1089456013151 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 1089456013152 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1089456013153 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1089456013154 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 1089456013155 DNA binding residues [nucleotide binding] 1089456013156 dimerization interface [polypeptide binding]; other site 1089456013157 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1089456013158 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 1089456013159 homodimer interface [polypeptide binding]; other site 1089456013160 active site 1089456013161 TDP-binding site; other site 1089456013162 acceptor substrate-binding pocket; other site 1089456013163 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456013164 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1089456013165 trimer interface [polypeptide binding]; other site 1089456013166 active site 1089456013167 antiporter inner membrane protein; Provisional; Region: PRK11670 1089456013168 Domain of unknown function DUF59; Region: DUF59; pfam01883 1089456013169 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 1089456013170 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1089456013171 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1089456013172 active site 1089456013173 HIGH motif; other site 1089456013174 KMSKS motif; other site 1089456013175 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1089456013176 tRNA binding surface [nucleotide binding]; other site 1089456013177 anticodon binding site; other site 1089456013178 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 1089456013179 putative tRNA-binding site [nucleotide binding]; other site 1089456013180 dimer interface [polypeptide binding]; other site 1089456013181 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1089456013182 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1089456013183 Catalytic domain, repeat 1, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_1; cd09104 1089456013184 putative active site [active] 1089456013185 catalytic site [active] 1089456013186 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456013187 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456013188 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, yeast PLDs, and similar proteins; Region: PLDc_vPLD1_2_yPLD_like_2; cd09141 1089456013189 putative active site [active] 1089456013190 catalytic site [active] 1089456013191 electron transport complex protein RsxA; Provisional; Region: PRK05151 1089456013192 electron transport complex protein RnfB; Provisional; Region: PRK05113 1089456013193 Putative Fe-S cluster; Region: FeS; pfam04060 1089456013194 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1089456013195 electron transport complex protein RnfC; Provisional; Region: PRK05035 1089456013196 SLBB domain; Region: SLBB; pfam10531 1089456013197 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 1089456013198 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 1089456013199 Predicted NADH:ubiquinone oxidoreductase, subunit RnfG [Energy production and conversion]; Region: RnfG; COG4659 1089456013200 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1089456013201 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1089456013202 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1089456013203 minor groove reading motif; other site 1089456013204 helix-hairpin-helix signature motif; other site 1089456013205 substrate binding pocket [chemical binding]; other site 1089456013206 active site 1089456013207 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1089456013208 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456013209 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 1089456013210 S-adenosylmethionine binding site [chemical binding]; other site 1089456013211 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1089456013212 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1089456013213 tetramer interface [polypeptide binding]; other site 1089456013214 active site 1089456013215 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1089456013216 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1089456013217 tetramer interface [polypeptide binding]; other site 1089456013218 active site 1089456013219 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1089456013220 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 1089456013221 metal-binding site [ion binding] 1089456013222 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456013223 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1089456013224 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456013225 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456013226 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456013227 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456013228 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1089456013229 dimer interface [polypeptide binding]; other site 1089456013230 active site 1089456013231 metal binding site [ion binding]; metal-binding site 1089456013232 glutathione binding site [chemical binding]; other site 1089456013233 argininosuccinate synthase; Provisional; Region: PRK13820 1089456013234 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 1089456013235 ANP binding site [chemical binding]; other site 1089456013236 Substrate Binding Site II [chemical binding]; other site 1089456013237 Substrate Binding Site I [chemical binding]; other site 1089456013238 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456013239 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456013240 ligand binding site [chemical binding]; other site 1089456013241 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 1089456013242 active site 1089456013243 substrate binding pocket [chemical binding]; other site 1089456013244 dimer interface [polypeptide binding]; other site 1089456013245 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1089456013246 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1089456013247 dimer interface [polypeptide binding]; other site 1089456013248 catalytic site [active] 1089456013249 putative active site [active] 1089456013250 putative substrate binding site [chemical binding]; other site 1089456013251 peroxidase; Provisional; Region: PRK15000 1089456013252 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 1089456013253 dimer interface [polypeptide binding]; other site 1089456013254 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1089456013255 catalytic triad [active] 1089456013256 peroxidatic and resolving cysteines [active] 1089456013257 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1089456013258 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1089456013259 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1089456013260 heme binding site [chemical binding]; other site 1089456013261 ferroxidase pore; other site 1089456013262 ferroxidase diiron center [ion binding]; other site 1089456013263 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456013264 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 1089456013265 putative GSH binding site [chemical binding]; other site 1089456013266 catalytic residues [active] 1089456013267 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1089456013268 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 1089456013269 putative [Fe4-S4] binding site [ion binding]; other site 1089456013270 putative molybdopterin cofactor binding site [chemical binding]; other site 1089456013271 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 1089456013272 putative molybdopterin cofactor binding site; other site 1089456013273 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1089456013274 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1089456013275 catalytic triad [active] 1089456013276 putative active site [active] 1089456013277 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1089456013278 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1089456013279 Autotransporter beta-domain; Region: Autotransporter; smart00869 1089456013280 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1089456013281 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1089456013282 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1089456013283 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1089456013284 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1089456013285 Walker A/P-loop; other site 1089456013286 ATP binding site [chemical binding]; other site 1089456013287 Q-loop/lid; other site 1089456013288 ABC transporter signature motif; other site 1089456013289 Walker B; other site 1089456013290 D-loop; other site 1089456013291 H-loop/switch region; other site 1089456013292 TOBE domain; Region: TOBE_2; pfam08402 1089456013293 hypothetical protein; Validated; Region: PRK02101 1089456013294 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1089456013295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456013296 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1089456013297 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1089456013298 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1089456013299 active site 1089456013300 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1089456013301 PilZ domain; Region: PilZ; pfam07238 1089456013302 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456013303 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1089456013304 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1089456013305 Sel1-like repeats; Region: SEL1; smart00671 1089456013306 Right handed beta helix region; Region: Beta_helix; pfam13229 1089456013307 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1089456013308 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1089456013309 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 1089456013310 active site 1089456013311 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1089456013312 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 1089456013313 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1089456013314 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1089456013315 Substrate binding site; other site 1089456013316 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1089456013317 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1089456013318 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 1089456013319 inhibitor-cofactor binding pocket; inhibition site 1089456013320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456013321 catalytic residue [active] 1089456013322 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1089456013323 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1089456013324 Ligand binding site; other site 1089456013325 Putative Catalytic site; other site 1089456013326 DXD motif; other site 1089456013327 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1089456013328 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 1089456013329 active site 1089456013330 substrate binding site [chemical binding]; other site 1089456013331 cosubstrate binding site; other site 1089456013332 catalytic site [active] 1089456013333 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 1089456013334 active site 1089456013335 hexamer interface [polypeptide binding]; other site 1089456013336 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1089456013337 NAD binding site [chemical binding]; other site 1089456013338 substrate binding site [chemical binding]; other site 1089456013339 active site 1089456013340 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1089456013341 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1089456013342 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 1089456013343 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1089456013344 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1089456013345 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1089456013346 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1089456013347 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1089456013348 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1089456013349 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1089456013350 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 1089456013351 active site 1089456013352 P-loop; other site 1089456013353 phosphorylation site [posttranslational modification] 1089456013354 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1089456013355 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 1089456013356 active site 1089456013357 P-loop; other site 1089456013358 phosphorylation site [posttranslational modification] 1089456013359 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1089456013360 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1089456013361 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 1089456013362 putative substrate binding site [chemical binding]; other site 1089456013363 putative ATP binding site [chemical binding]; other site 1089456013364 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1089456013365 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 1089456013366 active site 1089456013367 phosphorylation site [posttranslational modification] 1089456013368 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1089456013369 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 1089456013370 dimerization domain swap beta strand [polypeptide binding]; other site 1089456013371 regulatory protein interface [polypeptide binding]; other site 1089456013372 active site 1089456013373 regulatory phosphorylation site [posttranslational modification]; other site 1089456013374 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1089456013375 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1089456013376 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1089456013377 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1089456013378 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1089456013379 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1089456013380 DNA binding site [nucleotide binding] 1089456013381 domain linker motif; other site 1089456013382 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1089456013383 dimerization interface [polypeptide binding]; other site 1089456013384 ligand binding site [chemical binding]; other site 1089456013385 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1089456013386 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1089456013387 active site 1089456013388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456013389 transcriptional activator TtdR; Provisional; Region: PRK09801 1089456013390 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 1089456013391 putative effector binding pocket; other site 1089456013392 dimerization interface [polypeptide binding]; other site 1089456013393 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1089456013394 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1089456013395 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1089456013396 putative NAD(P) binding site [chemical binding]; other site 1089456013397 dimer interface [polypeptide binding]; other site 1089456013398 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1089456013399 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1089456013400 acyl-activating enzyme (AAE) consensus motif; other site 1089456013401 putative AMP binding site [chemical binding]; other site 1089456013402 putative active site [active] 1089456013403 putative CoA binding site [chemical binding]; other site 1089456013404 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1089456013405 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1089456013406 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1089456013407 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1089456013408 tetrameric interface [polypeptide binding]; other site 1089456013409 NAD binding site [chemical binding]; other site 1089456013410 catalytic residues [active] 1089456013411 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456013412 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456013413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456013414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013415 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1089456013416 putative substrate translocation pore; other site 1089456013417 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1089456013418 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456013419 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1089456013420 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 1089456013421 metal-binding site [ion binding] 1089456013422 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1089456013423 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1089456013424 glycerol kinase; Region: glycerol_kin; TIGR01311 1089456013425 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1089456013426 N- and C-terminal domain interface [polypeptide binding]; other site 1089456013427 active site 1089456013428 MgATP binding site [chemical binding]; other site 1089456013429 catalytic site [active] 1089456013430 metal binding site [ion binding]; metal-binding site 1089456013431 glycerol binding site [chemical binding]; other site 1089456013432 homotetramer interface [polypeptide binding]; other site 1089456013433 homodimer interface [polypeptide binding]; other site 1089456013434 FBP binding site [chemical binding]; other site 1089456013435 protein IIAGlc interface [polypeptide binding]; other site 1089456013436 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 1089456013437 putative deacylase active site [active] 1089456013438 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 1089456013439 amphipathic channel; other site 1089456013440 Asn-Pro-Ala signature motifs; other site 1089456013441 glycerol kinase; Provisional; Region: glpK; PRK00047 1089456013442 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1089456013443 N- and C-terminal domain interface [polypeptide binding]; other site 1089456013444 active site 1089456013445 MgATP binding site [chemical binding]; other site 1089456013446 catalytic site [active] 1089456013447 metal binding site [ion binding]; metal-binding site 1089456013448 glycerol binding site [chemical binding]; other site 1089456013449 homotetramer interface [polypeptide binding]; other site 1089456013450 homodimer interface [polypeptide binding]; other site 1089456013451 FBP binding site [chemical binding]; other site 1089456013452 protein IIAGlc interface [polypeptide binding]; other site 1089456013453 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1089456013454 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1089456013455 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1089456013456 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1089456013457 GlpM protein; Region: GlpM; pfam06942 1089456013458 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456013459 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1089456013460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456013461 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 1089456013462 putative dimerization interface [polypeptide binding]; other site 1089456013463 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456013464 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 1089456013465 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 1089456013466 dimer interface [polypeptide binding]; other site 1089456013467 active site 1089456013468 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1089456013469 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1089456013470 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456013471 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456013472 enoyl-CoA hydratase; Provisional; Region: PRK08138 1089456013473 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 1089456013474 substrate binding site [chemical binding]; other site 1089456013475 oxyanion hole (OAH) forming residues; other site 1089456013476 trimer interface [polypeptide binding]; other site 1089456013477 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1089456013478 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1089456013479 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456013480 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1089456013481 active site 1089456013482 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456013483 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456013484 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 1089456013485 putative dimerization interface [polypeptide binding]; other site 1089456013486 putative substrate binding pocket [chemical binding]; other site 1089456013487 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013488 metabolite-proton symporter; Region: 2A0106; TIGR00883 1089456013489 putative substrate translocation pore; other site 1089456013490 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1089456013491 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1089456013492 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1089456013493 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 1089456013494 DNA binding site [nucleotide binding] 1089456013495 active site 1089456013496 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1089456013497 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1089456013498 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1089456013499 putative active site [active] 1089456013500 catalytic triad [active] 1089456013501 putative dimer interface [polypeptide binding]; other site 1089456013502 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456013503 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 1089456013504 DNA binding residues [nucleotide binding] 1089456013505 dimerization interface [polypeptide binding]; other site 1089456013506 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1089456013507 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1089456013508 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1089456013509 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 1089456013510 active site 1089456013511 FMN binding site [chemical binding]; other site 1089456013512 substrate binding site [chemical binding]; other site 1089456013513 3Fe-4S cluster binding site [ion binding]; other site 1089456013514 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1089456013515 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456013516 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456013517 active site 1089456013518 phosphorylation site [posttranslational modification] 1089456013519 intermolecular recognition site; other site 1089456013520 dimerization interface [polypeptide binding]; other site 1089456013521 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 1089456013522 DNA binding residues [nucleotide binding] 1089456013523 dimerization interface [polypeptide binding]; other site 1089456013524 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1089456013525 EamA-like transporter family; Region: EamA; pfam00892 1089456013526 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1089456013527 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1089456013528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456013529 Walker A/P-loop; other site 1089456013530 ATP binding site [chemical binding]; other site 1089456013531 Q-loop/lid; other site 1089456013532 ABC transporter signature motif; other site 1089456013533 Walker B; other site 1089456013534 D-loop; other site 1089456013535 H-loop/switch region; other site 1089456013536 TOBE domain; Region: TOBE_2; pfam08402 1089456013537 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1089456013538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456013539 dimer interface [polypeptide binding]; other site 1089456013540 conserved gate region; other site 1089456013541 putative PBP binding loops; other site 1089456013542 ABC-ATPase subunit interface; other site 1089456013543 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1089456013544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456013545 dimer interface [polypeptide binding]; other site 1089456013546 conserved gate region; other site 1089456013547 putative PBP binding loops; other site 1089456013548 ABC-ATPase subunit interface; other site 1089456013549 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1089456013550 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456013551 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1089456013552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 1089456013553 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 1089456013554 XFP N-terminal domain; Region: XFP_N; pfam09364 1089456013555 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1089456013556 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456013557 Beta-Casp domain; Region: Beta-Casp; smart01027 1089456013558 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1089456013559 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1089456013560 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1089456013561 recombinase A; Provisional; Region: recA; PRK09354 1089456013562 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 1089456013563 hexamer interface [polypeptide binding]; other site 1089456013564 Walker A motif; other site 1089456013565 ATP binding site [chemical binding]; other site 1089456013566 Walker B motif; other site 1089456013567 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1089456013568 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1089456013569 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1089456013570 MutS domain I; Region: MutS_I; pfam01624 1089456013571 MutS domain II; Region: MutS_II; pfam05188 1089456013572 MutS domain III; Region: MutS_III; pfam05192 1089456013573 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1089456013574 Walker A/P-loop; other site 1089456013575 ATP binding site [chemical binding]; other site 1089456013576 Q-loop/lid; other site 1089456013577 ABC transporter signature motif; other site 1089456013578 Walker B; other site 1089456013579 D-loop; other site 1089456013580 H-loop/switch region; other site 1089456013581 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1089456013582 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1089456013583 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1089456013584 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1089456013585 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456013586 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1089456013587 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 1089456013588 DNA binding residues [nucleotide binding] 1089456013589 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456013590 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456013591 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1089456013592 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 1089456013593 S-adenosylmethionine binding site [chemical binding]; other site 1089456013594 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1089456013595 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1089456013596 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1089456013597 Permutation of conserved domain; other site 1089456013598 active site 1089456013599 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1089456013600 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 1089456013601 homotrimer interaction site [polypeptide binding]; other site 1089456013602 zinc binding site [ion binding]; other site 1089456013603 CDP-binding sites; other site 1089456013604 S-formylglutathione hydrolase; Region: PLN02442 1089456013605 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1089456013606 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1089456013607 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1089456013608 substrate binding site [chemical binding]; other site 1089456013609 catalytic Zn binding site [ion binding]; other site 1089456013610 NAD binding site [chemical binding]; other site 1089456013611 structural Zn binding site [ion binding]; other site 1089456013612 dimer interface [polypeptide binding]; other site 1089456013613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456013614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456013615 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 1089456013616 putative effector binding pocket; other site 1089456013617 putative dimerization interface [polypeptide binding]; other site 1089456013618 putative inner membrane protein; Provisional; Region: PRK11099 1089456013619 Sulphur transport; Region: Sulf_transp; pfam04143 1089456013620 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 1089456013621 CPxP motif; other site 1089456013622 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1089456013623 substrate binding site; other site 1089456013624 dimer interface; other site 1089456013625 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1089456013626 Septum formation initiator; Region: DivIC; cl17659 1089456013627 enolase; Provisional; Region: eno; PRK00077 1089456013628 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 1089456013629 dimer interface [polypeptide binding]; other site 1089456013630 metal binding site [ion binding]; metal-binding site 1089456013631 substrate binding pocket [chemical binding]; other site 1089456013632 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1089456013633 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1089456013634 CTP synthetase; Validated; Region: pyrG; PRK05380 1089456013635 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 1089456013636 Catalytic site [active] 1089456013637 active site 1089456013638 UTP binding site [chemical binding]; other site 1089456013639 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1089456013640 active site 1089456013641 putative oxyanion hole; other site 1089456013642 catalytic triad [active] 1089456013643 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 1089456013644 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1089456013645 Ligand Binding Site [chemical binding]; other site 1089456013646 TilS substrate binding domain; Region: TilS; pfam09179 1089456013647 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1089456013648 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1089456013649 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1089456013650 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1089456013651 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1089456013652 putative active site [active] 1089456013653 putative PHP Thumb interface [polypeptide binding]; other site 1089456013654 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 1089456013655 generic binding surface II; other site 1089456013656 generic binding surface I; other site 1089456013657 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1089456013658 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1089456013659 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1089456013660 RNA/DNA hybrid binding site [nucleotide binding]; other site 1089456013661 active site 1089456013662 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1089456013663 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1089456013664 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1089456013665 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 1089456013666 active site 1089456013667 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 1089456013668 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1089456013669 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1089456013670 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 1089456013671 trimer interface [polypeptide binding]; other site 1089456013672 active site 1089456013673 UDP-GlcNAc binding site [chemical binding]; other site 1089456013674 lipid binding site [chemical binding]; lipid-binding site 1089456013675 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1089456013676 periplasmic chaperone; Provisional; Region: PRK10780 1089456013677 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1089456013678 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1089456013679 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1089456013680 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1089456013681 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1089456013682 Surface antigen; Region: Bac_surface_Ag; pfam01103 1089456013683 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 1089456013684 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1089456013685 active site 1089456013686 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 1089456013687 protein binding site [polypeptide binding]; other site 1089456013688 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 1089456013689 protein binding site [polypeptide binding]; other site 1089456013690 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 1089456013691 putative substrate binding region [chemical binding]; other site 1089456013692 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1089456013693 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1089456013694 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1089456013695 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1089456013696 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1089456013697 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1089456013698 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 1089456013699 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1089456013700 catalytic residue [active] 1089456013701 putative FPP diphosphate binding site; other site 1089456013702 putative FPP binding hydrophobic cleft; other site 1089456013703 dimer interface [polypeptide binding]; other site 1089456013704 putative IPP diphosphate binding site; other site 1089456013705 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1089456013706 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 1089456013707 hinge region; other site 1089456013708 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 1089456013709 putative nucleotide binding site [chemical binding]; other site 1089456013710 uridine monophosphate binding site [chemical binding]; other site 1089456013711 homohexameric interface [polypeptide binding]; other site 1089456013712 elongation factor Ts; Provisional; Region: tsf; PRK09377 1089456013713 UBA/TS-N domain; Region: UBA; pfam00627 1089456013714 Elongation factor TS; Region: EF_TS; pfam00889 1089456013715 Elongation factor TS; Region: EF_TS; pfam00889 1089456013716 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 1089456013717 rRNA interaction site [nucleotide binding]; other site 1089456013718 S8 interaction site; other site 1089456013719 putative laminin-1 binding site; other site 1089456013720 methionine aminopeptidase; Provisional; Region: PRK08671 1089456013721 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 1089456013722 active site 1089456013723 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1089456013724 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1089456013725 metal binding triad; other site 1089456013726 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1089456013727 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456013728 Zn2+ binding site [ion binding]; other site 1089456013729 Mg2+ binding site [ion binding]; other site 1089456013730 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 1089456013731 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 1089456013732 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1089456013733 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 1089456013734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456013735 homodimer interface [polypeptide binding]; other site 1089456013736 catalytic residue [active] 1089456013737 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1089456013738 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1089456013739 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 1089456013740 ArsC family; Region: ArsC; pfam03960 1089456013741 putative catalytic residues [active] 1089456013742 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456013743 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1089456013744 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 1089456013745 putative trimer interface [polypeptide binding]; other site 1089456013746 putative CoA binding site [chemical binding]; other site 1089456013747 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1089456013748 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 1089456013749 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456013750 catalytic residue [active] 1089456013751 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1089456013752 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1089456013753 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 1089456013754 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1089456013755 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1089456013756 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1089456013757 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1089456013758 Walker A/P-loop; other site 1089456013759 ATP binding site [chemical binding]; other site 1089456013760 Q-loop/lid; other site 1089456013761 ABC transporter signature motif; other site 1089456013762 Walker B; other site 1089456013763 D-loop; other site 1089456013764 H-loop/switch region; other site 1089456013765 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1089456013766 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1089456013767 putative acyl-acceptor binding pocket; other site 1089456013768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1089456013769 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1089456013770 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1089456013771 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456013772 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456013773 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456013774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456013775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456013776 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1089456013777 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1089456013778 Cytochrome P450; Region: p450; cl12078 1089456013779 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1089456013780 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1089456013781 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1089456013782 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 1089456013783 tetramer interface [polypeptide binding]; other site 1089456013784 active site 1089456013785 Mg2+/Mn2+ binding site [ion binding]; other site 1089456013786 Protein of unknown function DUF72; Region: DUF72; cl00777 1089456013787 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1089456013788 Glycoprotease family; Region: Peptidase_M22; pfam00814 1089456013789 adenylate kinase; Reviewed; Region: adk; PRK00279 1089456013790 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 1089456013791 AMP-binding site [chemical binding]; other site 1089456013792 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1089456013793 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1089456013794 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1089456013795 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1089456013796 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1089456013797 DNA binding residues [nucleotide binding] 1089456013798 dimer interface [polypeptide binding]; other site 1089456013799 putative metal binding site [ion binding]; other site 1089456013800 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1089456013801 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 1089456013802 metal-binding site [ion binding] 1089456013803 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1089456013804 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1089456013805 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1089456013806 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1089456013807 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1089456013808 ligand binding site [chemical binding]; other site 1089456013809 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 1089456013810 putative ADP-ribose binding site [chemical binding]; other site 1089456013811 putative active site [active] 1089456013812 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 1089456013813 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456013814 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456013815 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456013816 Uncharacterized conserved protein [Function unknown]; Region: COG2013 1089456013817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3930 1089456013818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1089456013819 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1089456013820 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 1089456013821 dimer interface [polypeptide binding]; other site 1089456013822 putative anticodon binding site; other site 1089456013823 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 1089456013824 motif 1; other site 1089456013825 active site 1089456013826 motif 2; other site 1089456013827 motif 3; other site 1089456013828 peptide chain release factor 2; Provisional; Region: PRK08787 1089456013829 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1089456013830 RF-1 domain; Region: RF-1; pfam00472 1089456013831 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456013832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456013833 active site 1089456013834 phosphorylation site [posttranslational modification] 1089456013835 intermolecular recognition site; other site 1089456013836 dimerization interface [polypeptide binding]; other site 1089456013837 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456013838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456013839 metal binding site [ion binding]; metal-binding site 1089456013840 active site 1089456013841 I-site; other site 1089456013842 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1089456013843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456013844 phosphorylation site [posttranslational modification] 1089456013845 intermolecular recognition site; other site 1089456013846 CheB methylesterase; Region: CheB_methylest; pfam01339 1089456013847 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 1089456013848 putative binding surface; other site 1089456013849 active site 1089456013850 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1089456013851 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456013852 ATP binding site [chemical binding]; other site 1089456013853 Mg2+ binding site [ion binding]; other site 1089456013854 G-X-G motif; other site 1089456013855 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 1089456013856 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456013857 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456013858 active site 1089456013859 phosphorylation site [posttranslational modification] 1089456013860 intermolecular recognition site; other site 1089456013861 dimerization interface [polypeptide binding]; other site 1089456013862 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1089456013863 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1089456013864 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 1089456013865 S-adenosylmethionine binding site [chemical binding]; other site 1089456013866 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1089456013867 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1089456013868 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1089456013869 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 1089456013870 dimerization interface [polypeptide binding]; other site 1089456013871 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456013872 dimer interface [polypeptide binding]; other site 1089456013873 putative CheW interface [polypeptide binding]; other site 1089456013874 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013875 putative substrate translocation pore; other site 1089456013876 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1089456013877 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1089456013878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456013879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456013880 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 1089456013881 dimerization interface [polypeptide binding]; other site 1089456013882 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1089456013883 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1089456013884 putative metal binding site [ion binding]; other site 1089456013885 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456013886 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456013887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456013888 active site 1089456013889 phosphorylation site [posttranslational modification] 1089456013890 intermolecular recognition site; other site 1089456013891 dimerization interface [polypeptide binding]; other site 1089456013892 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 1089456013893 DNA binding residues [nucleotide binding] 1089456013894 dimerization interface [polypeptide binding]; other site 1089456013895 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1089456013896 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1089456013897 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013898 putative substrate translocation pore; other site 1089456013899 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456013900 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456013901 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456013902 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1089456013903 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 1089456013904 active site 1089456013905 FMN binding site [chemical binding]; other site 1089456013906 substrate binding site [chemical binding]; other site 1089456013907 homotetramer interface [polypeptide binding]; other site 1089456013908 catalytic residue [active] 1089456013909 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1089456013910 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1089456013911 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1089456013912 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1089456013913 active site 1089456013914 Zn binding site [ion binding]; other site 1089456013915 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1089456013916 DHH family; Region: DHH; pfam01368 1089456013917 DHHA1 domain; Region: DHHA1; pfam02272 1089456013918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 1089456013919 Catalytic domain of vertebrate phospholipase D6 and similar proteins; Region: PLDc_vPLD6_like; cd09171 1089456013920 PLD-like domain; Region: PLDc_2; pfam13091 1089456013921 putative active site [active] 1089456013922 catalytic site [active] 1089456013923 ATPase involved in DNA repair; Region: DUF3686; pfam12458 1089456013924 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 1089456013925 linker region; other site 1089456013926 AAA domain; Region: AAA_22; pfam13401 1089456013927 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 1089456013928 Walker A motif; other site 1089456013929 ATP binding site [chemical binding]; other site 1089456013930 Walker B motif; other site 1089456013931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1089456013932 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 1089456013933 PspA/IM30 family; Region: PspA_IM30; pfam04012 1089456013934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 1089456013935 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1089456013936 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1089456013937 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 1089456013938 nucleotide binding site [chemical binding]; other site 1089456013939 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1089456013940 Chlorophyllase enzyme; Region: Chlorophyllase2; pfam12740 1089456013941 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1089456013942 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 1089456013943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456013944 catalytic residue [active] 1089456013945 homoserine dehydrogenase; Provisional; Region: PRK06349 1089456013946 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1089456013947 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1089456013948 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 1089456013949 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1089456013950 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 1089456013951 dimerization domain [polypeptide binding]; other site 1089456013952 dimer interface [polypeptide binding]; other site 1089456013953 catalytic residues [active] 1089456013954 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1089456013955 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 1089456013956 active site 1089456013957 Int/Topo IB signature motif; other site 1089456013958 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1089456013959 TrkA-N domain; Region: TrkA_N; pfam02254 1089456013960 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 1089456013961 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 1089456013962 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1089456013963 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1089456013964 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1089456013965 RimM N-terminal domain; Region: RimM; pfam01782 1089456013966 PRC-barrel domain; Region: PRC; pfam05239 1089456013967 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1089456013968 signal recognition particle protein; Provisional; Region: PRK10867 1089456013969 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1089456013970 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 1089456013971 P loop; other site 1089456013972 GTP binding site [chemical binding]; other site 1089456013973 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1089456013974 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1089456013975 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1089456013976 Domain of unknown function DUF21; Region: DUF21; pfam01595 1089456013977 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 1089456013978 Transporter associated domain; Region: CorC_HlyC; smart01091 1089456013979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456013980 metabolite-proton symporter; Region: 2A0106; TIGR00883 1089456013981 putative substrate translocation pore; other site 1089456013982 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 1089456013983 active site 1089456013984 catalytic triad [active] 1089456013985 oxyanion hole [active] 1089456013986 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1089456013987 ATP-grasp domain; Region: ATP-grasp; pfam02222 1089456013988 Mor transcription activator family; Region: Mor; pfam08765 1089456013989 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1089456013990 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1089456013991 DNA Polymerase alpha zinc finger; Region: zf-DNA_Pol; pfam08996 1089456013992 AAA domain; Region: AAA_22; pfam13401 1089456013993 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cd02019 1089456013994 active site 1089456013995 Integrase core domain; Region: rve; pfam00665 1089456013996 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 1089456013997 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 1089456013998 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 1089456013999 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 1089456014000 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456014001 catalytic residue [active] 1089456014002 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1089456014003 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1089456014004 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1089456014005 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1089456014006 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1089456014007 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1089456014008 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1089456014009 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1089456014010 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1089456014011 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1089456014012 tape measure domain; Region: tape_meas_nterm; TIGR02675 1089456014013 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1089456014014 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 1089456014015 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1089456014016 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1089456014017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456014018 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1089456014019 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1089456014020 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 1089456014021 trimer interface [polypeptide binding]; other site 1089456014022 putative metal binding site [ion binding]; other site 1089456014023 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 1089456014024 putative active site [active] 1089456014025 putative CoA binding site [chemical binding]; other site 1089456014026 nudix motif; other site 1089456014027 metal binding site [ion binding]; metal-binding site 1089456014028 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 1089456014029 nudix motif; other site 1089456014030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1089456014031 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1089456014032 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1089456014033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456014034 DNA-binding site [nucleotide binding]; DNA binding site 1089456014035 UTRA domain; Region: UTRA; pfam07702 1089456014036 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1089456014037 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 1089456014038 active site 1089456014039 dimer interface [polypeptide binding]; other site 1089456014040 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1089456014041 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 1089456014042 dimer interface [polypeptide binding]; other site 1089456014043 active site 1089456014044 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 1089456014045 dimer interface [polypeptide binding]; other site 1089456014046 active site 1089456014047 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1089456014048 HPr interaction site; other site 1089456014049 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1089456014050 active site 1089456014051 phosphorylation site [posttranslational modification] 1089456014052 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 1089456014053 regulatory protein interface [polypeptide binding]; other site 1089456014054 active site 1089456014055 regulatory phosphorylation site [posttranslational modification]; other site 1089456014056 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1089456014057 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1089456014058 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1089456014059 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1089456014060 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1089456014061 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1089456014062 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 1089456014063 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 1089456014064 active site turn [active] 1089456014065 phosphorylation site [posttranslational modification] 1089456014066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1089456014067 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1089456014068 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 1089456014069 dimerization interface [polypeptide binding]; other site 1089456014070 ATP binding site [chemical binding]; other site 1089456014071 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 1089456014072 dimerization interface [polypeptide binding]; other site 1089456014073 ATP binding site [chemical binding]; other site 1089456014074 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1089456014075 putative active site [active] 1089456014076 catalytic triad [active] 1089456014077 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1089456014078 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 1089456014079 substrate binding pocket [chemical binding]; other site 1089456014080 membrane-bound complex binding site; other site 1089456014081 hinge residues; other site 1089456014082 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 1089456014083 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456014084 catalytic residue [active] 1089456014085 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1089456014086 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1089456014087 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1089456014088 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 1089456014089 nucleoside/Zn binding site; other site 1089456014090 dimer interface [polypeptide binding]; other site 1089456014091 catalytic motif [active] 1089456014092 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1089456014093 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1089456014094 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1089456014095 GMP synthase; Reviewed; Region: guaA; PRK00074 1089456014096 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1089456014097 AMP/PPi binding site [chemical binding]; other site 1089456014098 candidate oxyanion hole; other site 1089456014099 catalytic triad [active] 1089456014100 potential glutamine specificity residues [chemical binding]; other site 1089456014101 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 1089456014102 ATP Binding subdomain [chemical binding]; other site 1089456014103 Dimerization subdomain; other site 1089456014104 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1089456014105 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 1089456014106 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 1089456014107 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 1089456014108 active site 1089456014109 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456014110 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 1089456014111 DNA binding residues [nucleotide binding] 1089456014112 dimerization interface [polypeptide binding]; other site 1089456014113 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1089456014114 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1089456014115 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1089456014116 active site 1089456014117 Zn binding site [ion binding]; other site 1089456014118 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1089456014119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456014120 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 1089456014121 dimerization interface [polypeptide binding]; other site 1089456014122 substrate binding pocket [chemical binding]; other site 1089456014123 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1089456014124 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 1089456014125 generic binding surface II; other site 1089456014126 generic binding surface I; other site 1089456014127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456014128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456014129 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 1089456014130 dimerization interface [polypeptide binding]; other site 1089456014131 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1089456014132 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1089456014133 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1089456014134 DctM-like transporters; Region: DctM; pfam06808 1089456014135 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1089456014136 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1089456014137 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1089456014138 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1089456014139 conserved cys residue [active] 1089456014140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456014141 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456014142 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 1089456014143 catalytic triad [active] 1089456014144 conserved cis-peptide bond; other site 1089456014145 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 1089456014146 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1089456014147 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1089456014148 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1089456014149 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456014150 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1089456014151 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1089456014152 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1089456014153 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1089456014154 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1089456014155 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 1089456014156 N-terminal plug; other site 1089456014157 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1089456014158 ligand-binding site [chemical binding]; other site 1089456014159 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1089456014160 2-isopropylmalate synthase; Validated; Region: PRK03739 1089456014161 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1089456014162 active site 1089456014163 catalytic residues [active] 1089456014164 metal binding site [ion binding]; metal-binding site 1089456014165 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1089456014166 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 1089456014167 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456014168 active site 1089456014169 catalytic tetrad [active] 1089456014170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1089456014171 C-N hydrolase family amidase; Provisional; Region: PRK10438 1089456014172 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1089456014173 putative active site [active] 1089456014174 catalytic triad [active] 1089456014175 dimer interface [polypeptide binding]; other site 1089456014176 multimer interface [polypeptide binding]; other site 1089456014177 methionine aminotransferase; Validated; Region: PRK09082 1089456014178 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 1089456014179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456014180 homodimer interface [polypeptide binding]; other site 1089456014181 catalytic residue [active] 1089456014182 GTP-binding protein Der; Reviewed; Region: PRK00093 1089456014183 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1089456014184 G1 box; other site 1089456014185 GTP/Mg2+ binding site [chemical binding]; other site 1089456014186 Switch I region; other site 1089456014187 G2 box; other site 1089456014188 Switch II region; other site 1089456014189 G3 box; other site 1089456014190 G4 box; other site 1089456014191 G5 box; other site 1089456014192 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1089456014193 G1 box; other site 1089456014194 GTP/Mg2+ binding site [chemical binding]; other site 1089456014195 Switch I region; other site 1089456014196 G2 box; other site 1089456014197 G3 box; other site 1089456014198 Switch II region; other site 1089456014199 G4 box; other site 1089456014200 G5 box; other site 1089456014201 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1089456014202 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1089456014203 Trp docking motif [polypeptide binding]; other site 1089456014204 active site 1089456014205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1089456014206 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1089456014207 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1089456014208 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 1089456014209 dimer interface [polypeptide binding]; other site 1089456014210 motif 1; other site 1089456014211 active site 1089456014212 motif 2; other site 1089456014213 motif 3; other site 1089456014214 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 1089456014215 anticodon binding site; other site 1089456014216 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1089456014217 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1089456014218 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1089456014219 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1089456014220 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 1089456014221 non-specific DNA binding site [nucleotide binding]; other site 1089456014222 salt bridge; other site 1089456014223 sequence-specific DNA binding site [nucleotide binding]; other site 1089456014224 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1089456014225 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1089456014226 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 1089456014227 binding surface 1089456014228 TPR motif; other site 1089456014229 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 1089456014230 binding surface 1089456014231 TPR motif; other site 1089456014232 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1089456014233 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 1089456014234 FeS/SAM binding site; other site 1089456014235 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 1089456014236 active site 1089456014237 multimer interface [polypeptide binding]; other site 1089456014238 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1089456014239 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1089456014240 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 1089456014241 catalytic loop [active] 1089456014242 iron binding site [ion binding]; other site 1089456014243 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1089456014244 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1089456014245 nucleotide binding site [chemical binding]; other site 1089456014246 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1089456014247 SBD interface [polypeptide binding]; other site 1089456014248 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1089456014249 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 1089456014250 HSP70 interaction site [polypeptide binding]; other site 1089456014251 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1089456014252 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 1089456014253 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1089456014254 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1089456014255 trimerization site [polypeptide binding]; other site 1089456014256 active site 1089456014257 cysteine desulfurase; Provisional; Region: PRK14012 1089456014258 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1089456014259 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456014260 catalytic residue [active] 1089456014261 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1089456014262 Rrf2 family protein; Region: rrf2_super; TIGR00738 1089456014263 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1089456014264 serine O-acetyltransferase; Region: cysE; TIGR01172 1089456014265 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 1089456014266 trimer interface [polypeptide binding]; other site 1089456014267 active site 1089456014268 substrate binding site [chemical binding]; other site 1089456014269 CoA binding site [chemical binding]; other site 1089456014270 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1089456014271 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1089456014272 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1089456014273 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 1089456014274 active site 1089456014275 dimerization interface [polypeptide binding]; other site 1089456014276 hypothetical protein; Provisional; Region: PRK11280 1089456014277 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1089456014278 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1089456014279 Protein export membrane protein; Region: SecD_SecF; cl14618 1089456014280 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1089456014281 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1089456014282 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1089456014283 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1089456014284 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1089456014285 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1089456014286 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1089456014287 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1089456014288 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1089456014289 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1089456014290 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1089456014291 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 1089456014292 RDD family; Region: RDD; pfam06271 1089456014293 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1089456014294 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1089456014295 Predicted permeases [General function prediction only]; Region: COG0795 1089456014296 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1089456014297 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1089456014298 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456014299 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1089456014300 Cupin domain; Region: Cupin_2; pfam07883 1089456014301 Helix-turn-helix domain; Region: HTH_18; pfam12833 1089456014302 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1089456014303 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 1089456014304 interface (dimer of trimers) [polypeptide binding]; other site 1089456014305 Substrate-binding/catalytic site; other site 1089456014306 Zn-binding sites [ion binding]; other site 1089456014307 DNA polymerase III subunit chi; Validated; Region: PRK05728 1089456014308 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1089456014309 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1089456014310 HIGH motif; other site 1089456014311 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1089456014312 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1089456014313 active site 1089456014314 KMSKS motif; other site 1089456014315 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1089456014316 tRNA binding surface [nucleotide binding]; other site 1089456014317 anticodon binding site; other site 1089456014318 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1089456014319 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 1089456014320 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1089456014321 zinc binding site [ion binding]; other site 1089456014322 putative ligand binding site [chemical binding]; other site 1089456014323 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1089456014324 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 1089456014325 TM-ABC transporter signature motif; other site 1089456014326 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1089456014327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456014328 Walker A/P-loop; other site 1089456014329 ATP binding site [chemical binding]; other site 1089456014330 Q-loop/lid; other site 1089456014331 ABC transporter signature motif; other site 1089456014332 Walker B; other site 1089456014333 D-loop; other site 1089456014334 H-loop/switch region; other site 1089456014335 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 1089456014336 transmembrane helices; other site 1089456014337 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1089456014338 TrkA-C domain; Region: TrkA_C; pfam02080 1089456014339 TrkA-C domain; Region: TrkA_C; pfam02080 1089456014340 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 1089456014341 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1089456014342 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 1089456014343 S-adenosylmethionine binding site [chemical binding]; other site 1089456014344 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1089456014345 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 1089456014346 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 1089456014347 dimerization interface [polypeptide binding]; other site 1089456014348 putative DNA binding site [nucleotide binding]; other site 1089456014349 putative Zn2+ binding site [ion binding]; other site 1089456014350 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1089456014351 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1089456014352 putative NAD(P) binding site [chemical binding]; other site 1089456014353 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456014354 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 1089456014355 C-terminal domain interface [polypeptide binding]; other site 1089456014356 GSH binding site (G-site) [chemical binding]; other site 1089456014357 dimer interface [polypeptide binding]; other site 1089456014358 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1089456014359 dimer interface [polypeptide binding]; other site 1089456014360 N-terminal domain interface [polypeptide binding]; other site 1089456014361 putative substrate binding pocket (H-site) [chemical binding]; other site 1089456014362 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456014363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456014364 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 1089456014365 dimerization interface [polypeptide binding]; other site 1089456014366 substrate binding pocket [chemical binding]; other site 1089456014367 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 1089456014368 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456014369 catalytic triad [active] 1089456014370 dimer interface [polypeptide binding]; other site 1089456014371 conserved cis-peptide bond; other site 1089456014372 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1089456014373 hydrophobic ligand binding site; other site 1089456014374 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1089456014375 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1089456014376 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1089456014377 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 1089456014378 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456014379 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 1089456014380 C-terminal domain interface [polypeptide binding]; other site 1089456014381 GSH binding site (G-site) [chemical binding]; other site 1089456014382 dimer interface [polypeptide binding]; other site 1089456014383 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1089456014384 substrate binding pocket (H-site) [chemical binding]; other site 1089456014385 N-terminal domain interface [polypeptide binding]; other site 1089456014386 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1089456014387 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 1089456014388 trimer interface [polypeptide binding]; other site 1089456014389 active site 1089456014390 substrate binding site [chemical binding]; other site 1089456014391 CoA binding site [chemical binding]; other site 1089456014392 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1089456014393 putative active site [active] 1089456014394 GIY-YIG motif/motif A; other site 1089456014395 putative metal binding site [ion binding]; other site 1089456014396 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 1089456014397 putative C-terminal domain interface [polypeptide binding]; other site 1089456014398 putative GSH binding site [chemical binding]; other site 1089456014399 putative dimer interface [polypeptide binding]; other site 1089456014400 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 1089456014401 putative N-terminal domain interface [polypeptide binding]; other site 1089456014402 SnoaL-like domain; Region: SnoaL_2; pfam12680 1089456014403 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1089456014404 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1089456014405 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 1089456014406 substrate binding pocket [chemical binding]; other site 1089456014407 membrane-bound complex binding site; other site 1089456014408 hinge residues; other site 1089456014409 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1089456014410 putative hydrolase; Provisional; Region: PRK11460 1089456014411 AMP-binding domain protein; Validated; Region: PRK07529 1089456014412 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456014413 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1089456014414 acyl-activating enzyme (AAE) consensus motif; other site 1089456014415 putative AMP binding site [chemical binding]; other site 1089456014416 putative active site [active] 1089456014417 putative CoA binding site [chemical binding]; other site 1089456014418 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1089456014419 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 1089456014420 ATP binding site [chemical binding]; other site 1089456014421 Mg++ binding site [ion binding]; other site 1089456014422 motif III; other site 1089456014423 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 1089456014424 nucleotide binding region [chemical binding]; other site 1089456014425 ATP-binding site [chemical binding]; other site 1089456014426 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1089456014427 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1089456014428 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456014429 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1089456014430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1089456014431 YheO-like PAS domain; Region: PAS_6; pfam08348 1089456014432 HTH domain; Region: HTH_22; pfam13309 1089456014433 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1089456014434 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 1089456014435 substrate binding pocket [chemical binding]; other site 1089456014436 membrane-bound complex binding site; other site 1089456014437 hinge residues; other site 1089456014438 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1089456014439 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 1089456014440 N-terminal plug; other site 1089456014441 ligand-binding site [chemical binding]; other site 1089456014442 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 1089456014443 Moco binding site; other site 1089456014444 metal coordination site [ion binding]; other site 1089456014445 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1089456014446 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 1089456014447 FeS/SAM binding site; other site 1089456014448 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1089456014449 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1089456014450 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1089456014451 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1089456014452 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1089456014453 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1089456014454 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1089456014455 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 1089456014456 [4Fe-4S] binding site [ion binding]; other site 1089456014457 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 1089456014458 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 1089456014459 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 1089456014460 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 1089456014461 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 1089456014462 molybdopterin cofactor binding site; other site 1089456014463 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1089456014464 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1089456014465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456014466 putative substrate translocation pore; other site 1089456014467 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1089456014468 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1089456014469 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 1089456014470 dimerization interface [polypeptide binding]; other site 1089456014471 Histidine kinase; Region: HisKA_3; pfam07730 1089456014472 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456014473 ATP binding site [chemical binding]; other site 1089456014474 Mg2+ binding site [ion binding]; other site 1089456014475 G-X-G motif; other site 1089456014476 transcriptional regulator NarL; Provisional; Region: PRK10651 1089456014477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456014478 active site 1089456014479 phosphorylation site [posttranslational modification] 1089456014480 intermolecular recognition site; other site 1089456014481 dimerization interface [polypeptide binding]; other site 1089456014482 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 1089456014483 DNA binding residues [nucleotide binding] 1089456014484 dimerization interface [polypeptide binding]; other site 1089456014485 Uncharacterized conserved protein [Function unknown]; Region: COG4273 1089456014486 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 1089456014487 short chain dehydrogenase; Provisional; Region: PRK05693 1089456014488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456014489 NAD(P) binding site [chemical binding]; other site 1089456014490 active site 1089456014491 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1089456014492 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1089456014493 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1089456014494 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1089456014495 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1089456014496 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1089456014497 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1089456014498 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1089456014499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456014500 ABC-ATPase subunit interface; other site 1089456014501 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1089456014502 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1089456014503 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456014504 dimer interface [polypeptide binding]; other site 1089456014505 conserved gate region; other site 1089456014506 ABC-ATPase subunit interface; other site 1089456014507 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1089456014508 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1089456014509 Walker A/P-loop; other site 1089456014510 ATP binding site [chemical binding]; other site 1089456014511 Q-loop/lid; other site 1089456014512 ABC transporter signature motif; other site 1089456014513 Walker B; other site 1089456014514 D-loop; other site 1089456014515 H-loop/switch region; other site 1089456014516 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 1089456014517 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1089456014518 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456014519 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456014520 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1089456014521 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1089456014522 Outer membrane efflux protein; Region: OEP; pfam02321 1089456014523 Outer membrane efflux protein; Region: OEP; pfam02321 1089456014524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456014525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456014526 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 1089456014527 putative effector binding pocket; other site 1089456014528 dimerization interface [polypeptide binding]; other site 1089456014529 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1089456014530 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1089456014531 dimerization interface [polypeptide binding]; other site 1089456014532 ligand binding site [chemical binding]; other site 1089456014533 NADP binding site [chemical binding]; other site 1089456014534 catalytic site [active] 1089456014535 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1089456014536 EamA-like transporter family; Region: EamA; pfam00892 1089456014537 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1089456014538 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456014539 RNA polymerase sigma factor; Provisional; Region: PRK12528 1089456014540 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456014541 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 1089456014542 DNA binding residues [nucleotide binding] 1089456014543 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456014544 FecR protein; Region: FecR; pfam04773 1089456014545 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1089456014546 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 1089456014547 N-terminal plug; other site 1089456014548 ligand-binding site [chemical binding]; other site 1089456014549 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1089456014550 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1089456014551 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1089456014552 G1 box; other site 1089456014553 putative GEF interaction site [polypeptide binding]; other site 1089456014554 GTP/Mg2+ binding site [chemical binding]; other site 1089456014555 Switch I region; other site 1089456014556 G2 box; other site 1089456014557 G3 box; other site 1089456014558 Switch II region; other site 1089456014559 G4 box; other site 1089456014560 G5 box; other site 1089456014561 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 1089456014562 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1089456014563 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1089456014564 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1089456014565 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 1089456014566 generic binding surface I; other site 1089456014567 generic binding surface II; other site 1089456014568 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1089456014569 putative active site [active] 1089456014570 putative catalytic site [active] 1089456014571 putative Mg binding site IVb [ion binding]; other site 1089456014572 putative phosphate binding site [ion binding]; other site 1089456014573 putative DNA binding site [nucleotide binding]; other site 1089456014574 putative Mg binding site IVa [ion binding]; other site 1089456014575 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1089456014576 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1089456014577 putative active site [active] 1089456014578 putative metal binding site [ion binding]; other site 1089456014579 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1089456014580 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1089456014581 putative protease; Provisional; Region: PRK15447 1089456014582 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1089456014583 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1089456014584 Peptidase family U32; Region: Peptidase_U32; pfam01136 1089456014585 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1089456014586 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 1089456014587 dimer interface [polypeptide binding]; other site 1089456014588 putative functional site; other site 1089456014589 putative MPT binding site; other site 1089456014590 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 1089456014591 MPT binding site; other site 1089456014592 trimer interface [polypeptide binding]; other site 1089456014593 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 1089456014594 MoaE homodimer interface [polypeptide binding]; other site 1089456014595 MoaD interaction [polypeptide binding]; other site 1089456014596 active site residues [active] 1089456014597 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1089456014598 MoaE interaction surface [polypeptide binding]; other site 1089456014599 MoeB interaction surface [polypeptide binding]; other site 1089456014600 thiocarboxylated glycine; other site 1089456014601 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 1089456014602 trimer interface [polypeptide binding]; other site 1089456014603 dimer interface [polypeptide binding]; other site 1089456014604 putative active site [active] 1089456014605 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1089456014606 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1089456014607 active site 1089456014608 CHAD domain; Region: CHAD; pfam05235 1089456014609 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1089456014610 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1089456014611 putative active site [active] 1089456014612 PhoH-like protein; Region: PhoH; pfam02562 1089456014613 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1089456014614 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 1089456014615 metal-binding site [ion binding] 1089456014616 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1089456014617 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 1089456014618 metal-binding site [ion binding] 1089456014619 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1089456014620 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1089456014621 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1089456014622 AAA ATPase domain; Region: AAA_16; pfam13191 1089456014623 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 1089456014624 DNA binding residues [nucleotide binding] 1089456014625 dimerization interface [polypeptide binding]; other site 1089456014626 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1089456014627 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1089456014628 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1089456014629 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1089456014630 dimer interface [polypeptide binding]; other site 1089456014631 acyl-activating enzyme (AAE) consensus motif; other site 1089456014632 putative active site [active] 1089456014633 AMP binding site [chemical binding]; other site 1089456014634 putative CoA binding site [chemical binding]; other site 1089456014635 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1089456014636 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 1089456014637 dimer interface [polypeptide binding]; other site 1089456014638 active site 1089456014639 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456014640 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456014641 putative substrate translocation pore; other site 1089456014642 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456014643 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456014644 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456014645 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1089456014646 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1089456014647 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1089456014648 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1089456014649 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1089456014650 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1089456014651 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1089456014652 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 1089456014653 Walker A motif; other site 1089456014654 ATP binding site [chemical binding]; other site 1089456014655 Walker B motif; other site 1089456014656 BCCT family transporter; Region: BCCT; cl00569 1089456014657 Predicted membrane protein [Function unknown]; Region: COG1297 1089456014658 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1089456014659 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1089456014660 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1089456014661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456014662 dimer interface [polypeptide binding]; other site 1089456014663 conserved gate region; other site 1089456014664 putative PBP binding loops; other site 1089456014665 ABC-ATPase subunit interface; other site 1089456014666 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 1089456014667 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1089456014668 Walker A/P-loop; other site 1089456014669 ATP binding site [chemical binding]; other site 1089456014670 Q-loop/lid; other site 1089456014671 ABC transporter signature motif; other site 1089456014672 Walker B; other site 1089456014673 D-loop; other site 1089456014674 H-loop/switch region; other site 1089456014675 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1089456014676 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 1089456014677 substrate binding pocket [chemical binding]; other site 1089456014678 membrane-bound complex binding site; other site 1089456014679 hinge residues; other site 1089456014680 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456014681 active site 1089456014682 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 1089456014683 IHF dimer interface [polypeptide binding]; other site 1089456014684 IHF - DNA interface [nucleotide binding]; other site 1089456014685 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 1089456014686 active site 1089456014687 motif I; other site 1089456014688 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1089456014689 motif II; other site 1089456014690 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1089456014691 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 1089456014692 active site 1089456014693 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 1089456014694 catalytic triad [active] 1089456014695 dimer interface [polypeptide binding]; other site 1089456014696 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 1089456014697 NADPH bind site [chemical binding]; other site 1089456014698 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 1089456014699 putative FMN binding site [chemical binding]; other site 1089456014700 NADPH bind site [chemical binding]; other site 1089456014701 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1089456014702 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456014703 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1089456014704 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1089456014705 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 1089456014706 substrate binding pocket [chemical binding]; other site 1089456014707 membrane-bound complex binding site; other site 1089456014708 hinge residues; other site 1089456014709 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 1089456014710 substrate binding pocket [chemical binding]; other site 1089456014711 membrane-bound complex binding site; other site 1089456014712 hinge residues; other site 1089456014713 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 1089456014714 putative active site [active] 1089456014715 heme pocket [chemical binding]; other site 1089456014716 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 1089456014717 dimer interface [polypeptide binding]; other site 1089456014718 phosphorylation site [posttranslational modification] 1089456014719 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456014720 ATP binding site [chemical binding]; other site 1089456014721 Mg2+ binding site [ion binding]; other site 1089456014722 G-X-G motif; other site 1089456014723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456014724 active site 1089456014725 phosphorylation site [posttranslational modification] 1089456014726 intermolecular recognition site; other site 1089456014727 dimerization interface [polypeptide binding]; other site 1089456014728 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 1089456014729 putative binding surface; other site 1089456014730 active site 1089456014731 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456014732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456014733 active site 1089456014734 phosphorylation site [posttranslational modification] 1089456014735 intermolecular recognition site; other site 1089456014736 dimerization interface [polypeptide binding]; other site 1089456014737 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 1089456014738 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456014739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456014740 active site 1089456014741 phosphorylation site [posttranslational modification] 1089456014742 intermolecular recognition site; other site 1089456014743 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 1089456014744 DNA binding residues [nucleotide binding] 1089456014745 dimerization interface [polypeptide binding]; other site 1089456014746 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1089456014747 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 1089456014748 ATP binding site [chemical binding]; other site 1089456014749 Mg++ binding site [ion binding]; other site 1089456014750 motif III; other site 1089456014751 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 1089456014752 nucleotide binding region [chemical binding]; other site 1089456014753 ATP-binding site [chemical binding]; other site 1089456014754 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1089456014755 LabA_like proteins; Region: LabA; cd10911 1089456014756 putative metal binding site [ion binding]; other site 1089456014757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 1089456014758 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456014759 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 1089456014760 catalytic triad [active] 1089456014761 conserved cis-peptide bond; other site 1089456014762 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1089456014763 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 1089456014764 active site 1089456014765 dimer interface [polypeptide binding]; other site 1089456014766 non-prolyl cis peptide bond; other site 1089456014767 insertion regions; other site 1089456014768 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 1089456014769 short chain dehydrogenase; Provisional; Region: PRK06181 1089456014770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456014771 NAD(P) binding site [chemical binding]; other site 1089456014772 active site 1089456014773 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1089456014774 putative metal binding site [ion binding]; other site 1089456014775 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456014776 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1089456014777 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 1089456014778 ATP binding site [chemical binding]; other site 1089456014779 putative Mg++ binding site [ion binding]; other site 1089456014780 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 1089456014781 nucleotide binding region [chemical binding]; other site 1089456014782 ATP-binding site [chemical binding]; other site 1089456014783 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1089456014784 Cation efflux family; Region: Cation_efflux; cl00316 1089456014785 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456014786 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 1089456014787 putative DNA binding site [nucleotide binding]; other site 1089456014788 putative Zn2+ binding site [ion binding]; other site 1089456014789 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456014790 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1089456014791 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 1089456014792 heme-binding site [chemical binding]; other site 1089456014793 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1089456014794 pseudouridine synthase; Region: TIGR00093 1089456014795 active site 1089456014796 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1089456014797 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1089456014798 AMP nucleosidase; Provisional; Region: PRK08292 1089456014799 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1089456014800 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1089456014801 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 1089456014802 CoenzymeA binding site [chemical binding]; other site 1089456014803 subunit interaction site [polypeptide binding]; other site 1089456014804 PHB binding site; other site 1089456014805 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1089456014806 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456014807 active site 1089456014808 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456014809 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456014810 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1089456014811 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1089456014812 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1089456014813 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 1089456014814 dimer interface [polypeptide binding]; other site 1089456014815 phosphorylation site [posttranslational modification] 1089456014816 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456014817 ATP binding site [chemical binding]; other site 1089456014818 Mg2+ binding site [ion binding]; other site 1089456014819 G-X-G motif; other site 1089456014820 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456014821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456014822 active site 1089456014823 phosphorylation site [posttranslational modification] 1089456014824 intermolecular recognition site; other site 1089456014825 dimerization interface [polypeptide binding]; other site 1089456014826 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 1089456014827 substrate binding site [chemical binding]; other site 1089456014828 dimer interface [polypeptide binding]; other site 1089456014829 ATP binding site [chemical binding]; other site 1089456014830 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 1089456014831 thiamine phosphate binding site [chemical binding]; other site 1089456014832 active site 1089456014833 pyrophosphate binding site [ion binding]; other site 1089456014834 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1089456014835 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 1089456014836 inhibitor-cofactor binding pocket; inhibition site 1089456014837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456014838 catalytic residue [active] 1089456014839 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1089456014840 Sel1-like repeats; Region: SEL1; smart00671 1089456014841 Sel1-like repeats; Region: SEL1; smart00671 1089456014842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4517 1089456014843 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1089456014844 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1089456014845 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 1089456014846 FeS/SAM binding site; other site 1089456014847 TRAM domain; Region: TRAM; pfam01938 1089456014848 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1089456014849 PhoH-like protein; Region: PhoH; pfam02562 1089456014850 metal-binding heat shock protein; Provisional; Region: PRK00016 1089456014851 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1089456014852 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 1089456014853 Transporter associated domain; Region: CorC_HlyC; smart01091 1089456014854 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1089456014855 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1089456014856 putative active site [active] 1089456014857 catalytic triad [active] 1089456014858 putative dimer interface [polypeptide binding]; other site 1089456014859 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1089456014860 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 1089456014861 putative active site [active] 1089456014862 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1089456014863 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1089456014864 HIGH motif; other site 1089456014865 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1089456014866 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1089456014867 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1089456014868 active site 1089456014869 KMSKS motif; other site 1089456014870 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1089456014871 tRNA binding surface [nucleotide binding]; other site 1089456014872 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 1089456014873 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1089456014874 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1089456014875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1089456014876 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1089456014877 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 1089456014878 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456014879 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1089456014880 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456014881 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456014882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456014883 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 1089456014884 dimerization interface [polypeptide binding]; other site 1089456014885 lipoyl synthase; Provisional; Region: PRK05481 1089456014886 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 1089456014887 FeS/SAM binding site; other site 1089456014888 lipoate-protein ligase B; Provisional; Region: PRK14342 1089456014889 hypothetical protein; Provisional; Region: PRK00341 1089456014890 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1089456014891 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1089456014892 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1089456014893 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1089456014894 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1089456014895 Sporulation related domain; Region: SPOR; pfam05036 1089456014896 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1089456014897 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 1089456014898 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1089456014899 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1089456014900 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1089456014901 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1089456014902 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1089456014903 Uncharacterized conserved protein [Function unknown]; Region: COG1576 1089456014904 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1089456014905 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1089456014906 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1089456014907 active site 1089456014908 (T/H)XGH motif; other site 1089456014909 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1089456014910 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1089456014911 putative catalytic cysteine [active] 1089456014912 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1089456014913 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1089456014914 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1089456014915 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1089456014916 active site 1089456014917 DNA binding site [nucleotide binding] 1089456014918 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1089456014919 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1089456014920 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 1089456014921 active site 1089456014922 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1089456014923 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1089456014924 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1089456014925 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 1089456014926 putative active site [active] 1089456014927 putative catalytic site [active] 1089456014928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1089456014929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1089456014930 MORN repeat; Region: MORN; cl14787 1089456014931 Peptidase C13 family; Region: Peptidase_C13; pfam01650 1089456014932 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1089456014933 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1089456014934 NAD binding site [chemical binding]; other site 1089456014935 active site 1089456014936 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5645 1089456014937 aromatic acid decarboxylase; Validated; Region: PRK05920 1089456014938 Flavoprotein; Region: Flavoprotein; pfam02441 1089456014939 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1089456014940 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1089456014941 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1089456014942 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1089456014943 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1089456014944 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 1089456014945 putative active site [active] 1089456014946 heme pocket [chemical binding]; other site 1089456014947 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 1089456014948 Walker A motif; other site 1089456014949 ATP binding site [chemical binding]; other site 1089456014950 Walker B motif; other site 1089456014951 arginine finger; other site 1089456014952 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456014953 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1089456014954 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1089456014955 NAD(P) binding site [chemical binding]; other site 1089456014956 catalytic residues [active] 1089456014957 ethanolamine permease; Region: 2A0305; TIGR00908 1089456014958 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1089456014959 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1089456014960 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1089456014961 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456014962 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1089456014963 Coenzyme A binding pocket [chemical binding]; other site 1089456014964 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456014965 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 1089456014966 substrate binding pocket [chemical binding]; other site 1089456014967 membrane-bound complex binding site; other site 1089456014968 hinge residues; other site 1089456014969 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1089456014970 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1089456014971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3228 1089456014972 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 1089456014973 dimer interface [polypeptide binding]; other site 1089456014974 substrate binding site [chemical binding]; other site 1089456014975 metal binding sites [ion binding]; metal-binding site 1089456014976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1089456014977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456014978 active site 1089456014979 phosphorylation site [posttranslational modification] 1089456014980 intermolecular recognition site; other site 1089456014981 dimerization interface [polypeptide binding]; other site 1089456014982 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 1089456014983 DNA binding site [nucleotide binding] 1089456014984 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 1089456014985 amphipathic channel; other site 1089456014986 Asn-Pro-Ala signature motifs; other site 1089456014987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1089456014988 FecR protein; Region: FecR; pfam04773 1089456014989 CHASE2 domain; Region: CHASE2; pfam05226 1089456014990 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1089456014991 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1089456014992 PAS domain; Region: PAS; smart00091 1089456014993 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 1089456014994 dimer interface [polypeptide binding]; other site 1089456014995 phosphorylation site [posttranslational modification] 1089456014996 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456014997 ATP binding site [chemical binding]; other site 1089456014998 Mg2+ binding site [ion binding]; other site 1089456014999 G-X-G motif; other site 1089456015000 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1089456015001 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1089456015002 Walker A/P-loop; other site 1089456015003 ATP binding site [chemical binding]; other site 1089456015004 Q-loop/lid; other site 1089456015005 ABC transporter signature motif; other site 1089456015006 Walker B; other site 1089456015007 D-loop; other site 1089456015008 H-loop/switch region; other site 1089456015009 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1089456015010 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1089456015011 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 1089456015012 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1089456015013 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1089456015014 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 1089456015015 putative active site pocket [active] 1089456015016 metal binding site [ion binding]; metal-binding site 1089456015017 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1089456015018 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1089456015019 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1089456015020 substrate binding pocket [chemical binding]; other site 1089456015021 chain length determination region; other site 1089456015022 substrate-Mg2+ binding site; other site 1089456015023 catalytic residues [active] 1089456015024 aspartate-rich region 1; other site 1089456015025 active site lid residues [active] 1089456015026 aspartate-rich region 2; other site 1089456015027 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1089456015028 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 1089456015029 TPP-binding site; other site 1089456015030 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 1089456015031 PYR/PP interface [polypeptide binding]; other site 1089456015032 dimer interface [polypeptide binding]; other site 1089456015033 TPP binding site [chemical binding]; other site 1089456015034 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1089456015035 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1089456015036 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 1089456015037 cobalamin binding residues [chemical binding]; other site 1089456015038 putative BtuC binding residues; other site 1089456015039 dimer interface [polypeptide binding]; other site 1089456015040 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 1089456015041 dimerization interface [polypeptide binding]; other site 1089456015042 active site 1089456015043 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1089456015044 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1089456015045 catalytic motif [active] 1089456015046 Catalytic residue [active] 1089456015047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456015048 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1089456015049 tetramer interfaces [polypeptide binding]; other site 1089456015050 binuclear metal-binding site [ion binding]; other site 1089456015051 thiamine monophosphate kinase; Provisional; Region: PRK05731 1089456015052 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 1089456015053 ATP binding site [chemical binding]; other site 1089456015054 dimerization interface [polypeptide binding]; other site 1089456015055 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1089456015056 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 1089456015057 homopentamer interface [polypeptide binding]; other site 1089456015058 active site 1089456015059 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1089456015060 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1089456015061 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1089456015062 dimerization interface [polypeptide binding]; other site 1089456015063 active site 1089456015064 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1089456015065 Lumazine binding domain; Region: Lum_binding; pfam00677 1089456015066 Lumazine binding domain; Region: Lum_binding; pfam00677 1089456015067 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1089456015068 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 1089456015069 catalytic motif [active] 1089456015070 Zn binding site [ion binding]; other site 1089456015071 RibD C-terminal domain; Region: RibD_C; cl17279 1089456015072 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1089456015073 ATP cone domain; Region: ATP-cone; pfam03477 1089456015074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1089456015075 Predicted methyltransferase [General function prediction only]; Region: COG3897 1089456015076 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 1089456015077 S-adenosylmethionine binding site [chemical binding]; other site 1089456015078 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1089456015079 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 1089456015080 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1089456015081 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1089456015082 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1089456015083 Walker A/P-loop; other site 1089456015084 ATP binding site [chemical binding]; other site 1089456015085 Q-loop/lid; other site 1089456015086 ABC transporter signature motif; other site 1089456015087 Walker B; other site 1089456015088 D-loop; other site 1089456015089 H-loop/switch region; other site 1089456015090 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1089456015091 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1089456015092 FtsX-like permease family; Region: FtsX; pfam02687 1089456015093 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1089456015094 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1089456015095 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 1089456015096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456015097 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1089456015098 NAD(P) binding site [chemical binding]; other site 1089456015099 active site 1089456015100 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1089456015101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456015102 NAD(P) binding site [chemical binding]; other site 1089456015103 active site 1089456015104 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1089456015105 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456015106 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 1089456015107 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1089456015108 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1089456015109 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1089456015110 NAD(P) binding site [chemical binding]; other site 1089456015111 catalytic residues [active] 1089456015112 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 1089456015113 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456015114 DNA binding residues [nucleotide binding] 1089456015115 dimerization interface [polypeptide binding]; other site 1089456015116 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1089456015117 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 1089456015118 non-specific DNA binding site [nucleotide binding]; other site 1089456015119 salt bridge; other site 1089456015120 sequence-specific DNA binding site [nucleotide binding]; other site 1089456015121 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1089456015122 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1089456015123 acyl-activating enzyme (AAE) consensus motif; other site 1089456015124 AMP binding site [chemical binding]; other site 1089456015125 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456015126 Putative dehydrogenase domain of multifunctional non-ribosomal peptide synthetases and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3320 1089456015127 Male sterility protein; Region: NAD_binding_4; pfam07993 1089456015128 NAD(P) binding site [chemical binding]; other site 1089456015129 active site 1089456015130 short chain dehydrogenase; Provisional; Region: PRK08177 1089456015131 NAD(P) binding site [chemical binding]; other site 1089456015132 active site 1089456015133 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456015134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456015135 active site 1089456015136 phosphorylation site [posttranslational modification] 1089456015137 intermolecular recognition site; other site 1089456015138 dimerization interface [polypeptide binding]; other site 1089456015139 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 1089456015140 DNA binding residues [nucleotide binding] 1089456015141 dimerization interface [polypeptide binding]; other site 1089456015142 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1089456015143 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1089456015144 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1089456015145 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1089456015146 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1089456015147 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1089456015148 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1089456015149 PapC N-terminal domain; Region: PapC_N; pfam13954 1089456015150 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1089456015151 PapC C-terminal domain; Region: PapC_C; pfam13953 1089456015152 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1089456015153 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1089456015154 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1089456015155 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1089456015156 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1089456015157 aminotransferase; Validated; Region: PRK07046 1089456015158 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 1089456015159 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456015160 catalytic residue [active] 1089456015161 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1089456015162 classical (c) SDRs; Region: SDR_c; cd05233 1089456015163 NAD(P) binding site [chemical binding]; other site 1089456015164 active site 1089456015165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 1089456015166 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 1089456015167 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1089456015168 Flavin Reductases; Region: FlaRed; cl00801 1089456015169 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456015170 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 1089456015171 DNA binding residues [nucleotide binding] 1089456015172 dimerization interface [polypeptide binding]; other site 1089456015173 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1089456015174 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 1089456015175 FMN-binding pocket [chemical binding]; other site 1089456015176 flavin binding motif; other site 1089456015177 phosphate binding motif [ion binding]; other site 1089456015178 beta-alpha-beta structure motif; other site 1089456015179 NAD binding pocket [chemical binding]; other site 1089456015180 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 1089456015181 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1089456015182 catalytic loop [active] 1089456015183 iron binding site [ion binding]; other site 1089456015184 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1089456015185 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 1089456015186 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1089456015187 hydrophobic ligand binding site; other site 1089456015188 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 1089456015189 CoenzymeA binding site [chemical binding]; other site 1089456015190 subunit interaction site [polypeptide binding]; other site 1089456015191 PHB binding site; other site 1089456015192 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456015193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456015194 Cupin domain; Region: Cupin_2; pfam07883 1089456015195 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456015196 D-galactonate transporter; Region: 2A0114; TIGR00893 1089456015197 putative substrate translocation pore; other site 1089456015198 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1089456015199 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1089456015200 putative NAD(P) binding site [chemical binding]; other site 1089456015201 catalytic Zn binding site [ion binding]; other site 1089456015202 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456015203 classical (c) SDRs; Region: SDR_c; cd05233 1089456015204 NAD(P) binding site [chemical binding]; other site 1089456015205 active site 1089456015206 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1089456015207 choline dehydrogenase; Validated; Region: PRK02106 1089456015208 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1089456015209 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1089456015210 classical (c) SDRs; Region: SDR_c; cd05233 1089456015211 NAD(P) binding site [chemical binding]; other site 1089456015212 active site 1089456015213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456015214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456015215 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 1089456015216 dimerization interface [polypeptide binding]; other site 1089456015217 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1089456015218 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1089456015219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456015220 Zn2+ binding site [ion binding]; other site 1089456015221 Mg2+ binding site [ion binding]; other site 1089456015222 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456015223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456015224 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 1089456015225 putative dimerization interface [polypeptide binding]; other site 1089456015226 putative substrate binding pocket [chemical binding]; other site 1089456015227 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1089456015228 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1089456015229 CHASE domain; Region: CHASE; cl01369 1089456015230 PAS domain S-box; Region: sensory_box; TIGR00229 1089456015231 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 1089456015232 putative active site [active] 1089456015233 heme pocket [chemical binding]; other site 1089456015234 PAS domain; Region: PAS_9; pfam13426 1089456015235 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 1089456015236 putative active site [active] 1089456015237 heme pocket [chemical binding]; other site 1089456015238 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 1089456015239 PAS fold; Region: PAS_3; pfam08447 1089456015240 putative active site [active] 1089456015241 heme pocket [chemical binding]; other site 1089456015242 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 1089456015243 dimer interface [polypeptide binding]; other site 1089456015244 phosphorylation site [posttranslational modification] 1089456015245 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456015246 ATP binding site [chemical binding]; other site 1089456015247 Mg2+ binding site [ion binding]; other site 1089456015248 G-X-G motif; other site 1089456015249 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1089456015250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456015251 active site 1089456015252 phosphorylation site [posttranslational modification] 1089456015253 intermolecular recognition site; other site 1089456015254 dimerization interface [polypeptide binding]; other site 1089456015255 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456015256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456015257 active site 1089456015258 phosphorylation site [posttranslational modification] 1089456015259 intermolecular recognition site; other site 1089456015260 dimerization interface [polypeptide binding]; other site 1089456015261 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 1089456015262 putative binding surface; other site 1089456015263 active site 1089456015264 putative arabinose transporter; Provisional; Region: PRK03545 1089456015265 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456015266 putative substrate translocation pore; other site 1089456015267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456015268 Coenzyme A binding pocket [chemical binding]; other site 1089456015269 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1089456015270 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1089456015271 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 1089456015272 heme binding pocket [chemical binding]; other site 1089456015273 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1089456015274 GAF domain; Region: GAF; pfam01590 1089456015275 Phytochrome region; Region: PHY; pfam00360 1089456015276 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 1089456015277 dimer interface [polypeptide binding]; other site 1089456015278 phosphorylation site [posttranslational modification] 1089456015279 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456015280 ATP binding site [chemical binding]; other site 1089456015281 Mg2+ binding site [ion binding]; other site 1089456015282 G-X-G motif; other site 1089456015283 Predicted periplasmic protein [Function unknown]; Region: COG3904 1089456015284 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 1089456015285 Phosphotransferase enzyme family; Region: APH; pfam01636 1089456015286 active site 1089456015287 ATP binding site [chemical binding]; other site 1089456015288 antibiotic binding site [chemical binding]; other site 1089456015289 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1089456015290 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456015291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456015292 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 1089456015293 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1089456015294 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1089456015295 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1089456015296 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1089456015297 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1089456015298 NAD binding site [chemical binding]; other site 1089456015299 catalytic residues [active] 1089456015300 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1089456015301 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1089456015302 putative active site [active] 1089456015303 putative metal binding site [ion binding]; other site 1089456015304 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 1089456015305 putative substrate binding pocket [chemical binding]; other site 1089456015306 trimer interface [polypeptide binding]; other site 1089456015307 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1089456015308 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456015309 putative substrate translocation pore; other site 1089456015310 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1089456015311 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1089456015312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1089456015313 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1089456015314 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1089456015315 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1089456015316 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1089456015317 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1089456015318 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 1089456015319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456015320 DNA-binding site [nucleotide binding]; DNA binding site 1089456015321 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 1089456015322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456015323 homodimer interface [polypeptide binding]; other site 1089456015324 catalytic residue [active] 1089456015325 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 1089456015326 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1089456015327 Low-spin heme binding site [chemical binding]; other site 1089456015328 Putative water exit pathway; other site 1089456015329 Binuclear center (active site) [active] 1089456015330 Putative proton exit pathway; other site 1089456015331 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1089456015332 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1089456015333 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1089456015334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456015335 putative substrate translocation pore; other site 1089456015336 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456015337 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1089456015338 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1089456015339 active site 1089456015340 HIGH motif; other site 1089456015341 dimer interface [polypeptide binding]; other site 1089456015342 KMSKS motif; other site 1089456015343 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1089456015344 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456015345 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 1089456015346 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1089456015347 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456015348 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456015349 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1089456015350 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 1089456015351 putative active site [active] 1089456015352 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1089456015353 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1089456015354 Walker A/P-loop; other site 1089456015355 ATP binding site [chemical binding]; other site 1089456015356 Q-loop/lid; other site 1089456015357 ABC transporter signature motif; other site 1089456015358 Walker B; other site 1089456015359 D-loop; other site 1089456015360 H-loop/switch region; other site 1089456015361 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456015362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456015363 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 1089456015364 putative effector binding pocket; other site 1089456015365 dimerization interface [polypeptide binding]; other site 1089456015366 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456015367 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1089456015368 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 1089456015369 Walker A motif; other site 1089456015370 ATP binding site [chemical binding]; other site 1089456015371 Walker B motif; other site 1089456015372 arginine finger; other site 1089456015373 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456015374 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456015375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456015376 NAD(P) binding site [chemical binding]; other site 1089456015377 active site 1089456015378 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1089456015379 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1089456015380 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1089456015381 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 1089456015382 tetramer interface [polypeptide binding]; other site 1089456015383 TPP-binding site [chemical binding]; other site 1089456015384 heterodimer interface [polypeptide binding]; other site 1089456015385 phosphorylation loop region [posttranslational modification] 1089456015386 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1089456015387 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 1089456015388 alpha subunit interface [polypeptide binding]; other site 1089456015389 TPP binding site [chemical binding]; other site 1089456015390 heterodimer interface [polypeptide binding]; other site 1089456015391 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1089456015392 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1089456015393 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 1089456015394 E3 interaction surface; other site 1089456015395 lipoyl attachment site [posttranslational modification]; other site 1089456015396 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 1089456015397 nucleophilic elbow; other site 1089456015398 catalytic triad; other site 1089456015399 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1089456015400 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1089456015401 putative NAD(P) binding site [chemical binding]; other site 1089456015402 catalytic Zn binding site [ion binding]; other site 1089456015403 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1089456015404 Bacterial SH3 domain; Region: SH3_3; pfam08239 1089456015405 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1089456015406 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 1089456015407 active site 1089456015408 non-prolyl cis peptide bond; other site 1089456015409 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1089456015410 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 1089456015411 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1089456015412 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1089456015413 Bacterial transcriptional regulator; Region: IclR; pfam01614 1089456015414 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1089456015415 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1089456015416 Walker A/P-loop; other site 1089456015417 ATP binding site [chemical binding]; other site 1089456015418 Q-loop/lid; other site 1089456015419 ABC transporter signature motif; other site 1089456015420 Walker B; other site 1089456015421 D-loop; other site 1089456015422 H-loop/switch region; other site 1089456015423 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 1089456015424 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1089456015425 siderophore binding site; other site 1089456015426 FecCD transport family; Region: FecCD; pfam01032 1089456015427 ABC-ATPase subunit interface; other site 1089456015428 dimer interface [polypeptide binding]; other site 1089456015429 putative PBP binding regions; other site 1089456015430 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1089456015431 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 1089456015432 ABC-ATPase subunit interface; other site 1089456015433 dimer interface [polypeptide binding]; other site 1089456015434 amidase; Validated; Region: PRK06565 1089456015435 Amidase; Region: Amidase; cl11426 1089456015436 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 1089456015437 putative active site pocket [active] 1089456015438 dimerization interface [polypeptide binding]; other site 1089456015439 putative catalytic residue [active] 1089456015440 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 1089456015441 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456015442 DNA-binding site [nucleotide binding]; DNA binding site 1089456015443 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 1089456015444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456015445 homodimer interface [polypeptide binding]; other site 1089456015446 catalytic residue [active] 1089456015447 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456015448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456015449 Coenzyme A binding pocket [chemical binding]; other site 1089456015450 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 1089456015451 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1089456015452 active site 1089456015453 catalytic tetrad [active] 1089456015454 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1089456015455 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 1089456015456 N-terminal plug; other site 1089456015457 ligand-binding site [chemical binding]; other site 1089456015458 Predicted transcriptional regulator [Transcription]; Region: COG1959 1089456015459 Transcriptional regulator; Region: Rrf2; pfam02082 1089456015460 Transcriptional regulator; Region: Rrf2; cl17282 1089456015461 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1089456015462 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1089456015463 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1089456015464 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1089456015465 proposed catalytic triad [active] 1089456015466 conserved cys residue [active] 1089456015467 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 1089456015468 putative catalytic site [active] 1089456015469 putative phosphate binding site [ion binding]; other site 1089456015470 active site 1089456015471 metal binding site A [ion binding]; metal-binding site 1089456015472 DNA binding site [nucleotide binding] 1089456015473 putative AP binding site [nucleotide binding]; other site 1089456015474 putative metal binding site B [ion binding]; other site 1089456015475 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 1089456015476 homotrimer interaction site [polypeptide binding]; other site 1089456015477 putative active site [active] 1089456015478 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456015479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456015480 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 1089456015481 putative effector binding pocket; other site 1089456015482 putative dimerization interface [polypeptide binding]; other site 1089456015483 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1089456015484 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1089456015485 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1089456015486 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1089456015487 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 1089456015488 S-adenosylmethionine binding site [chemical binding]; other site 1089456015489 outer membrane porin, OprD family; Region: OprD; pfam03573 1089456015490 acetolactate synthase; Reviewed; Region: PRK08322 1089456015491 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1089456015492 PYR/PP interface [polypeptide binding]; other site 1089456015493 dimer interface [polypeptide binding]; other site 1089456015494 TPP binding site [chemical binding]; other site 1089456015495 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456015496 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 1089456015497 TPP-binding site [chemical binding]; other site 1089456015498 dimer interface [polypeptide binding]; other site 1089456015499 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1089456015500 B3/4 domain; Region: B3_4; pfam03483 1089456015501 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1089456015502 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1089456015503 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 1089456015504 active site 1089456015505 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1089456015506 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1089456015507 conserved cys residue [active] 1089456015508 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456015509 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1089456015510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456015511 DNA-binding site [nucleotide binding]; DNA binding site 1089456015512 FCD domain; Region: FCD; pfam07729 1089456015513 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456015514 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456015515 benzoate transport; Region: 2A0115; TIGR00895 1089456015516 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456015517 putative substrate translocation pore; other site 1089456015518 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1089456015519 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1089456015520 inhibitor site; inhibition site 1089456015521 active site 1089456015522 dimer interface [polypeptide binding]; other site 1089456015523 catalytic residue [active] 1089456015524 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1089456015525 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1089456015526 NAD(P) binding site [chemical binding]; other site 1089456015527 catalytic residues [active] 1089456015528 putative monooxygenase; Reviewed; Region: PRK07045 1089456015529 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1089456015530 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1089456015531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456015532 active site 1089456015533 phosphorylation site [posttranslational modification] 1089456015534 intermolecular recognition site; other site 1089456015535 dimerization interface [polypeptide binding]; other site 1089456015536 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 1089456015537 DNA binding residues [nucleotide binding] 1089456015538 dimerization interface [polypeptide binding]; other site 1089456015539 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1089456015540 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 1089456015541 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1089456015542 putative active site [active] 1089456015543 heme pocket [chemical binding]; other site 1089456015544 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1089456015545 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 1089456015546 putative active site [active] 1089456015547 heme pocket [chemical binding]; other site 1089456015548 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 1089456015549 dimer interface [polypeptide binding]; other site 1089456015550 phosphorylation site [posttranslational modification] 1089456015551 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456015552 ATP binding site [chemical binding]; other site 1089456015553 Mg2+ binding site [ion binding]; other site 1089456015554 G-X-G motif; other site 1089456015555 acyl-CoA synthetase; Validated; Region: PRK08162 1089456015556 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1089456015557 acyl-activating enzyme (AAE) consensus motif; other site 1089456015558 putative active site [active] 1089456015559 AMP binding site [chemical binding]; other site 1089456015560 putative CoA binding site [chemical binding]; other site 1089456015561 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1089456015562 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1089456015563 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456015564 active site 1089456015565 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1089456015566 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1089456015567 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1089456015568 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1089456015569 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456015570 Nitronate monooxygenase; Region: NMO; pfam03060 1089456015571 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 1089456015572 FMN binding site [chemical binding]; other site 1089456015573 substrate binding site [chemical binding]; other site 1089456015574 putative catalytic residue [active] 1089456015575 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456015576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456015577 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 1089456015578 putative dimerization interface [polypeptide binding]; other site 1089456015579 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 1089456015580 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1089456015581 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 1089456015582 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 1089456015583 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1089456015584 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1089456015585 tape measure domain; Region: tape_meas_nterm; TIGR02675 1089456015586 Phage-related minor tail protein [Function unknown]; Region: COG5281 1089456015587 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1089456015588 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 1089456015589 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1089456015590 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1089456015591 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 1089456015592 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1089456015593 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1089456015594 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1089456015595 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 1089456015596 Helix-turn-helix domain; Region: HTH_28; pfam13518 1089456015597 Herpesvirus UL33-like protein; Region: Herpes_UL33; cl17329 1089456015598 virion protein; Provisional; Region: V; PHA02564 1089456015599 Mor transcription activator family; Region: Mor; cl02360 1089456015600 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1089456015601 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 1089456015602 AAA domain; Region: AAA_22; pfam13401 1089456015603 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1089456015604 Walker A motif; other site 1089456015605 ATP binding site [chemical binding]; other site 1089456015606 Walker B motif; other site 1089456015607 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1089456015608 Integrase core domain; Region: rve; pfam00665 1089456015609 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1089456015610 Predicted membrane protein [Function unknown]; Region: COG2259 1089456015611 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1089456015612 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456015613 multidrug efflux protein; Reviewed; Region: PRK09579 1089456015614 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1089456015615 O-methyltransferase; Region: Methyltransf_2; pfam00891 1089456015616 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1089456015617 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 1089456015618 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 1089456015619 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1089456015620 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1089456015621 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1089456015622 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1089456015623 glutamine binding [chemical binding]; other site 1089456015624 catalytic triad [active] 1089456015625 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 1089456015626 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 1089456015627 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1089456015628 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1089456015629 hypothetical protein; Provisional; Region: PRK07538 1089456015630 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1089456015631 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1089456015632 muropeptide transporter; Validated; Region: ampG; cl17669 1089456015633 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1089456015634 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1089456015635 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 1089456015636 N-terminal plug; other site 1089456015637 ligand-binding site [chemical binding]; other site 1089456015638 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1089456015639 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1089456015640 Walker A/P-loop; other site 1089456015641 ATP binding site [chemical binding]; other site 1089456015642 Q-loop/lid; other site 1089456015643 ABC transporter signature motif; other site 1089456015644 Walker B; other site 1089456015645 D-loop; other site 1089456015646 H-loop/switch region; other site 1089456015647 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1089456015648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456015649 Walker A/P-loop; other site 1089456015650 ATP binding site [chemical binding]; other site 1089456015651 Q-loop/lid; other site 1089456015652 ABC transporter signature motif; other site 1089456015653 Walker B; other site 1089456015654 D-loop; other site 1089456015655 H-loop/switch region; other site 1089456015656 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 1089456015657 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1089456015658 Condensation domain; Region: Condensation; pfam00668 1089456015659 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456015660 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1089456015661 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1089456015662 acyl-activating enzyme (AAE) consensus motif; other site 1089456015663 AMP binding site [chemical binding]; other site 1089456015664 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1089456015665 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456015666 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456015667 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1089456015668 Condensation domain; Region: Condensation; pfam00668 1089456015669 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1089456015670 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1089456015671 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1089456015672 acyl-activating enzyme (AAE) consensus motif; other site 1089456015673 AMP binding site [chemical binding]; other site 1089456015674 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1089456015675 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1089456015676 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456015677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456015678 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1089456015679 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1089456015680 acyl-activating enzyme (AAE) consensus motif; other site 1089456015681 active site 1089456015682 AMP binding site [chemical binding]; other site 1089456015683 substrate binding site [chemical binding]; other site 1089456015684 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1089456015685 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 1089456015686 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 1089456015687 isochorismate synthases; Region: isochor_syn; TIGR00543 1089456015688 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1089456015689 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 1089456015690 ssDNA binding site [nucleotide binding]; other site 1089456015691 dimer interface [polypeptide binding]; other site 1089456015692 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1089456015693 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456015694 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456015695 putative substrate translocation pore; other site 1089456015696 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1089456015697 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1089456015698 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1089456015699 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1089456015700 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1089456015701 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1089456015702 heme binding site [chemical binding]; other site 1089456015703 ferroxidase pore; other site 1089456015704 ferroxidase diiron center [ion binding]; other site 1089456015705 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1089456015706 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1089456015707 tetramer interface [polypeptide binding]; other site 1089456015708 heme binding pocket [chemical binding]; other site 1089456015709 NADPH binding site [chemical binding]; other site 1089456015710 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1089456015711 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1089456015712 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1089456015713 alphaNTD homodimer interface [polypeptide binding]; other site 1089456015714 alphaNTD - beta interaction site [polypeptide binding]; other site 1089456015715 alphaNTD - beta' interaction site [polypeptide binding]; other site 1089456015716 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1089456015717 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1089456015718 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1089456015719 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 1089456015720 RNA binding surface [nucleotide binding]; other site 1089456015721 30S ribosomal protein S11; Validated; Region: PRK05309 1089456015722 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1089456015723 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1089456015724 Ribosomal protein L36 [Translation, ribosomal structure and biogenesis]; Region: RpmJ; COG0257 1089456015725 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1089456015726 SecY translocase; Region: SecY; pfam00344 1089456015727 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1089456015728 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 1089456015729 23S rRNA binding site [nucleotide binding]; other site 1089456015730 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1089456015731 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1089456015732 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1089456015733 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 1089456015734 5S rRNA interface [nucleotide binding]; other site 1089456015735 23S rRNA interface [nucleotide binding]; other site 1089456015736 L5 interface [polypeptide binding]; other site 1089456015737 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1089456015738 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1089456015739 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1089456015740 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1089456015741 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1089456015742 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1089456015743 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1089456015744 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1089456015745 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1089456015746 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1089456015747 RNA binding site [nucleotide binding]; other site 1089456015748 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1089456015749 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1089456015750 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 1089456015751 23S rRNA interface [nucleotide binding]; other site 1089456015752 putative translocon interaction site; other site 1089456015753 signal recognition particle (SRP54) interaction site; other site 1089456015754 L23 interface [polypeptide binding]; other site 1089456015755 trigger factor interaction site; other site 1089456015756 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 1089456015757 23S rRNA interface [nucleotide binding]; other site 1089456015758 5S rRNA interface [nucleotide binding]; other site 1089456015759 putative antibiotic binding site [chemical binding]; other site 1089456015760 L25 interface [polypeptide binding]; other site 1089456015761 L27 interface [polypeptide binding]; other site 1089456015762 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1089456015763 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 1089456015764 G-X-X-G motif; other site 1089456015765 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1089456015766 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 1089456015767 protein-rRNA interface [nucleotide binding]; other site 1089456015768 putative translocon binding site; other site 1089456015769 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1089456015770 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1089456015771 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1089456015772 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1089456015773 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1089456015774 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1089456015775 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1089456015776 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1089456015777 elongation factor Tu; Reviewed; Region: PRK00049 1089456015778 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1089456015779 G1 box; other site 1089456015780 GEF interaction site [polypeptide binding]; other site 1089456015781 GTP/Mg2+ binding site [chemical binding]; other site 1089456015782 Switch I region; other site 1089456015783 G2 box; other site 1089456015784 G3 box; other site 1089456015785 Switch II region; other site 1089456015786 G4 box; other site 1089456015787 G5 box; other site 1089456015788 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 1089456015789 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 1089456015790 Antibiotic Binding Site [chemical binding]; other site 1089456015791 elongation factor G; Reviewed; Region: PRK00007 1089456015792 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1089456015793 G1 box; other site 1089456015794 putative GEF interaction site [polypeptide binding]; other site 1089456015795 GTP/Mg2+ binding site [chemical binding]; other site 1089456015796 Switch I region; other site 1089456015797 G2 box; other site 1089456015798 G3 box; other site 1089456015799 Switch II region; other site 1089456015800 G4 box; other site 1089456015801 G5 box; other site 1089456015802 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 1089456015803 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 1089456015804 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 1089456015805 30S ribosomal protein S7; Validated; Region: PRK05302 1089456015806 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 1089456015807 S17 interaction site [polypeptide binding]; other site 1089456015808 S8 interaction site; other site 1089456015809 16S rRNA interaction site [nucleotide binding]; other site 1089456015810 streptomycin interaction site [chemical binding]; other site 1089456015811 23S rRNA interaction site [nucleotide binding]; other site 1089456015812 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1089456015813 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1089456015814 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1089456015815 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1089456015816 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1089456015817 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1089456015818 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1089456015819 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1089456015820 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1089456015821 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1089456015822 DNA binding site [nucleotide binding] 1089456015823 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1089456015824 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1089456015825 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 1089456015826 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1089456015827 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 1089456015828 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1089456015829 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 1089456015830 RPB3 interaction site [polypeptide binding]; other site 1089456015831 RPB1 interaction site [polypeptide binding]; other site 1089456015832 RPB11 interaction site [polypeptide binding]; other site 1089456015833 RPB10 interaction site [polypeptide binding]; other site 1089456015834 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 1089456015835 core dimer interface [polypeptide binding]; other site 1089456015836 peripheral dimer interface [polypeptide binding]; other site 1089456015837 L10 interface [polypeptide binding]; other site 1089456015838 L11 interface [polypeptide binding]; other site 1089456015839 putative EF-Tu interaction site [polypeptide binding]; other site 1089456015840 putative EF-G interaction site [polypeptide binding]; other site 1089456015841 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 1089456015842 23S rRNA interface [nucleotide binding]; other site 1089456015843 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1089456015844 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 1089456015845 mRNA/rRNA interface [nucleotide binding]; other site 1089456015846 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1089456015847 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 1089456015848 23S rRNA interface [nucleotide binding]; other site 1089456015849 L7/L12 interface [polypeptide binding]; other site 1089456015850 putative thiostrepton binding site; other site 1089456015851 L25 interface [polypeptide binding]; other site 1089456015852 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1089456015853 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1089456015854 putative homodimer interface [polypeptide binding]; other site 1089456015855 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1089456015856 heterodimer interface [polypeptide binding]; other site 1089456015857 homodimer interface [polypeptide binding]; other site 1089456015858 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1089456015859 elongation factor Tu; Reviewed; Region: PRK00049 1089456015860 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1089456015861 G1 box; other site 1089456015862 GEF interaction site [polypeptide binding]; other site 1089456015863 GTP/Mg2+ binding site [chemical binding]; other site 1089456015864 Switch I region; other site 1089456015865 G2 box; other site 1089456015866 G3 box; other site 1089456015867 Switch II region; other site 1089456015868 G4 box; other site 1089456015869 G5 box; other site 1089456015870 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 1089456015871 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 1089456015872 Antibiotic Binding Site [chemical binding]; other site 1089456015873 Sporulation related domain; Region: SPOR; pfam05036 1089456015874 Sporulation related domain; Region: SPOR; pfam05036 1089456015875 Sporulation related domain; Region: SPOR; cl10051 1089456015876 pantothenate kinase; Reviewed; Region: PRK13322 1089456015877 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1089456015878 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1089456015879 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1089456015880 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1089456015881 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1089456015882 active site 1089456015883 HIGH motif; other site 1089456015884 dimer interface [polypeptide binding]; other site 1089456015885 KMSKS motif; other site 1089456015886 putative peptidase; Provisional; Region: PRK11649 1089456015887 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1089456015888 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456015889 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 1089456015890 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1089456015891 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1089456015892 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1089456015893 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1089456015894 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1089456015895 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1089456015896 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1089456015897 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 1089456015898 FMN binding site [chemical binding]; other site 1089456015899 substrate binding site [chemical binding]; other site 1089456015900 putative catalytic residue [active] 1089456015901 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1089456015902 Predicted membrane protein [Function unknown]; Region: COG3152 1089456015903 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1089456015904 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1089456015905 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1089456015906 classical (c) SDRs; Region: SDR_c; cd05233 1089456015907 NAD(P) binding site [chemical binding]; other site 1089456015908 active site 1089456015909 Ycf46; Provisional; Region: ycf46; CHL00195 1089456015910 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 1089456015911 Walker A motif; other site 1089456015912 ATP binding site [chemical binding]; other site 1089456015913 Walker B motif; other site 1089456015914 arginine finger; other site 1089456015915 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 1089456015916 nucleotide binding site/active site [active] 1089456015917 HIT family signature motif; other site 1089456015918 catalytic residue [active] 1089456015919 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1089456015920 diiron binding motif [ion binding]; other site 1089456015921 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1089456015922 OsmC-like protein; Region: OsmC; cl00767 1089456015923 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1089456015924 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 1089456015925 ligand binding site [chemical binding]; other site 1089456015926 flexible hinge region; other site 1089456015927 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 1089456015928 putative switch regulator; other site 1089456015929 non-specific DNA interactions [nucleotide binding]; other site 1089456015930 DNA binding site [nucleotide binding] 1089456015931 sequence specific DNA binding site [nucleotide binding]; other site 1089456015932 putative cAMP binding site [chemical binding]; other site 1089456015933 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 1089456015934 active site 1089456015935 ribulose/triose binding site [chemical binding]; other site 1089456015936 phosphate binding site [ion binding]; other site 1089456015937 substrate (anthranilate) binding pocket [chemical binding]; other site 1089456015938 product (indole) binding pocket [chemical binding]; other site 1089456015939 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1089456015940 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1089456015941 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1089456015942 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1089456015943 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1089456015944 glutamine binding [chemical binding]; other site 1089456015945 catalytic triad [active] 1089456015946 Predicted chitinase [General function prediction only]; Region: COG3179 1089456015947 catalytic residue [active] 1089456015948 Phage protein D [General function prediction only]; Region: COG3500 1089456015949 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1089456015950 Phage protein U [General function prediction only]; Region: COG3499 1089456015951 Mu-like prophage protein [General function prediction only]; Region: COG3941 1089456015952 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1089456015953 phage contractile tail tube protein, P2 family; Region: tail_tube; TIGR01611 1089456015954 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1089456015955 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 1089456015956 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1089456015957 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1089456015958 Phage-related baseplate assembly protein [General function prediction only]; Region: COG3948 1089456015959 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 1089456015960 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1089456015961 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1089456015962 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1089456015963 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 1089456015964 non-specific DNA binding site [nucleotide binding]; other site 1089456015965 Predicted transcriptional regulator [Transcription]; Region: COG2932 1089456015966 salt bridge; other site 1089456015967 sequence-specific DNA binding site [nucleotide binding]; other site 1089456015968 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 1089456015969 Catalytic site [active] 1089456015970 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 1089456015971 anthranilate synthase component I; Provisional; Region: PRK13565 1089456015972 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1089456015973 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1089456015974 phosphoglycolate phosphatase; Provisional; Region: PRK13223 1089456015975 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 1089456015976 motif II; other site 1089456015977 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 1089456015978 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1089456015979 substrate binding site [chemical binding]; other site 1089456015980 hexamer interface [polypeptide binding]; other site 1089456015981 metal binding site [ion binding]; metal-binding site 1089456015982 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1089456015983 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456015984 dimer interface [polypeptide binding]; other site 1089456015985 conserved gate region; other site 1089456015986 putative PBP binding loops; other site 1089456015987 ABC-ATPase subunit interface; other site 1089456015988 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456015989 dimer interface [polypeptide binding]; other site 1089456015990 conserved gate region; other site 1089456015991 putative PBP binding loops; other site 1089456015992 ABC-ATPase subunit interface; other site 1089456015993 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1089456015994 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456015995 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1089456015996 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1089456015997 Walker A/P-loop; other site 1089456015998 ATP binding site [chemical binding]; other site 1089456015999 Q-loop/lid; other site 1089456016000 ABC transporter signature motif; other site 1089456016001 Walker B; other site 1089456016002 D-loop; other site 1089456016003 H-loop/switch region; other site 1089456016004 Poxvirus L5 protein family; Region: Pox_L5; cl17406 1089456016005 TOBE domain; Region: TOBE_2; pfam08402 1089456016006 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1089456016007 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1089456016008 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456016009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456016010 active site 1089456016011 phosphorylation site [posttranslational modification] 1089456016012 intermolecular recognition site; other site 1089456016013 dimerization interface [polypeptide binding]; other site 1089456016014 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 1089456016015 DNA binding residues [nucleotide binding] 1089456016016 dimerization interface [polypeptide binding]; other site 1089456016017 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 1089456016018 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456016019 substrate binding pocket [chemical binding]; other site 1089456016020 membrane-bound complex binding site; other site 1089456016021 hinge residues; other site 1089456016022 PAS domain S-box; Region: sensory_box; TIGR00229 1089456016023 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 1089456016024 putative active site [active] 1089456016025 heme pocket [chemical binding]; other site 1089456016026 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 1089456016027 PAS fold; Region: PAS_3; pfam08447 1089456016028 putative active site [active] 1089456016029 heme pocket [chemical binding]; other site 1089456016030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1089456016031 Histidine kinase; Region: HisKA_3; pfam07730 1089456016032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456016033 ATP binding site [chemical binding]; other site 1089456016034 Mg2+ binding site [ion binding]; other site 1089456016035 G-X-G motif; other site 1089456016036 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1089456016037 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1089456016038 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1089456016039 putative metal binding site [ion binding]; other site 1089456016040 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 1089456016041 HSP70 interaction site [polypeptide binding]; other site 1089456016042 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 1089456016043 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1089456016044 Substrate binding site; other site 1089456016045 metal-binding site 1089456016046 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1089456016047 Phosphotransferase enzyme family; Region: APH; pfam01636 1089456016048 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1089456016049 OstA-like protein; Region: OstA; cl00844 1089456016050 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1089456016051 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1089456016052 SurA N-terminal domain; Region: SurA_N; pfam09312 1089456016053 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1089456016054 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1089456016055 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1089456016056 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1089456016057 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1089456016058 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1089456016059 S-adenosylmethionine binding site [chemical binding]; other site 1089456016060 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1089456016061 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1089456016062 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1089456016063 active site 1089456016064 metal binding site [ion binding]; metal-binding site 1089456016065 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 1089456016066 active site residue [active] 1089456016067 PrkA family serine protein kinase; Provisional; Region: PRK15455 1089456016068 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1089456016069 hypothetical protein; Provisional; Region: PRK05325 1089456016070 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1089456016071 SpoVR family protein; Provisional; Region: PRK11767 1089456016072 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1089456016073 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1089456016074 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1089456016075 active site 1089456016076 NTP binding site [chemical binding]; other site 1089456016077 metal binding triad [ion binding]; metal-binding site 1089456016078 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1089456016079 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456016080 Zn2+ binding site [ion binding]; other site 1089456016081 Mg2+ binding site [ion binding]; other site 1089456016082 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 1089456016083 catalytic center binding site [active] 1089456016084 ATP binding site [chemical binding]; other site 1089456016085 Dihydroneopterin aldolase; Region: FolB; smart00905 1089456016086 active site 1089456016087 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1089456016088 UGMP family protein; Validated; Region: PRK09604 1089456016089 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1089456016090 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1089456016091 Yqey-like protein; Region: YqeY; pfam09424 1089456016092 DNA primase, catalytic core; Region: dnaG; TIGR01391 1089456016093 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1089456016094 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1089456016095 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 1089456016096 active site 1089456016097 metal binding site [ion binding]; metal-binding site 1089456016098 interdomain interaction site; other site 1089456016099 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1089456016100 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1089456016101 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1089456016102 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1089456016103 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1089456016104 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1089456016105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456016106 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1089456016107 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 1089456016108 DNA binding residues [nucleotide binding] 1089456016109 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456016110 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 1089456016111 substrate binding pocket [chemical binding]; other site 1089456016112 membrane-bound complex binding site; other site 1089456016113 hinge residues; other site 1089456016114 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 1089456016115 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1089456016116 putative active site [active] 1089456016117 heme pocket [chemical binding]; other site 1089456016118 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 1089456016119 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1089456016120 putative active site [active] 1089456016121 heme pocket [chemical binding]; other site 1089456016122 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 1089456016123 putative active site [active] 1089456016124 heme pocket [chemical binding]; other site 1089456016125 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 1089456016126 putative active site [active] 1089456016127 heme pocket [chemical binding]; other site 1089456016128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456016129 metal binding site [ion binding]; metal-binding site 1089456016130 active site 1089456016131 I-site; other site 1089456016132 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 1089456016133 Uncharacterized conserved protein [Function unknown]; Region: COG4983 1089456016134 Bifunctional DNA primase/polymerase, N-terminal; Region: Prim-Pol; pfam09250 1089456016135 AAA domain; Region: AAA_25; pfam13481 1089456016136 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 1089456016137 Walker A motif; other site 1089456016138 ATP binding site [chemical binding]; other site 1089456016139 Walker B motif; other site 1089456016140 Helix-turn-helix domain; Region: HTH_17; pfam12728 1089456016141 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 1089456016142 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1089456016143 active site 1089456016144 DNA binding site [nucleotide binding] 1089456016145 Int/Topo IB signature motif; other site 1089456016146 Fic family protein [Function unknown]; Region: COG3177 1089456016147 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1089456016148 Fic/DOC family; Region: Fic; pfam02661 1089456016149 Nuclease-related domain; Region: NERD; pfam08378 1089456016150 Peptidase M60-like family; Region: M60-like; pfam13402 1089456016151 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 1089456016152 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 1089456016153 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1089456016154 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1089456016155 Cupin; Region: Cupin_6; pfam12852 1089456016156 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456016157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456016158 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1089456016159 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1089456016160 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 1089456016161 motif II; other site 1089456016162 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1089456016163 Predicted flavoproteins [General function prediction only]; Region: COG2081 1089456016164 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1089456016165 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1089456016166 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456016167 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 1089456016168 S-adenosylmethionine binding site [chemical binding]; other site 1089456016169 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1089456016170 SnoaL-like domain; Region: SnoaL_3; pfam13474 1089456016171 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 1089456016172 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1089456016173 intersubunit interface [polypeptide binding]; other site 1089456016174 active site 1089456016175 zinc binding site [ion binding]; other site 1089456016176 Na+ binding site [ion binding]; other site 1089456016177 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1089456016178 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1089456016179 Phosphoglycerate kinase; Region: PGK; pfam00162 1089456016180 substrate binding site [chemical binding]; other site 1089456016181 hinge regions; other site 1089456016182 ADP binding site [chemical binding]; other site 1089456016183 catalytic site [active] 1089456016184 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1089456016185 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1089456016186 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1089456016187 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1089456016188 transketolase; Reviewed; Region: PRK12753 1089456016189 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 1089456016190 TPP-binding site [chemical binding]; other site 1089456016191 dimer interface [polypeptide binding]; other site 1089456016192 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 1089456016193 PYR/PP interface [polypeptide binding]; other site 1089456016194 dimer interface [polypeptide binding]; other site 1089456016195 TPP binding site [chemical binding]; other site 1089456016196 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1089456016197 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 1089456016198 putative DNA binding site [nucleotide binding]; other site 1089456016199 dimerization interface [polypeptide binding]; other site 1089456016200 putative Zn2+ binding site [ion binding]; other site 1089456016201 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1089456016202 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 1089456016203 S-adenosylmethionine binding site [chemical binding]; other site 1089456016204 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1089456016205 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1089456016206 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1089456016207 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1089456016208 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1089456016209 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1089456016210 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 1089456016211 FAD binding pocket [chemical binding]; other site 1089456016212 FAD binding motif [chemical binding]; other site 1089456016213 phosphate binding motif [ion binding]; other site 1089456016214 beta-alpha-beta structure motif; other site 1089456016215 NAD binding pocket [chemical binding]; other site 1089456016216 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1089456016217 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1089456016218 active site 1089456016219 metal binding site [ion binding]; metal-binding site 1089456016220 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1089456016221 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1089456016222 Cytochrome c556 [Energy production and conversion]; Region: COG3909 1089456016223 Predicted membrane protein [Function unknown]; Region: COG3686 1089456016224 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1089456016225 EamA-like transporter family; Region: EamA; cl17759 1089456016226 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1089456016227 LemA family; Region: LemA; pfam04011 1089456016228 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1089456016229 Repair protein; Region: Repair_PSII; pfam04536 1089456016230 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 1089456016231 non-specific DNA binding site [nucleotide binding]; other site 1089456016232 salt bridge; other site 1089456016233 sequence-specific DNA binding site [nucleotide binding]; other site 1089456016234 Cupin domain; Region: Cupin_2; pfam07883 1089456016235 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456016236 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456016237 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1089456016238 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 1089456016239 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1089456016240 putative active site [active] 1089456016241 heme pocket [chemical binding]; other site 1089456016242 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 1089456016243 putative active site [active] 1089456016244 heme pocket [chemical binding]; other site 1089456016245 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1089456016246 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 1089456016247 DNA binding residues [nucleotide binding] 1089456016248 dimerization interface [polypeptide binding]; other site 1089456016249 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1089456016250 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1089456016251 catalytic triad [active] 1089456016252 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1089456016253 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 1089456016254 inhibitor-cofactor binding pocket; inhibition site 1089456016255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456016256 catalytic residue [active] 1089456016257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1089456016258 MOSC domain; Region: MOSC; pfam03473 1089456016259 3-alpha domain; Region: 3-alpha; pfam03475 1089456016260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456016261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456016262 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 1089456016263 dimerization interface [polypeptide binding]; other site 1089456016264 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1089456016265 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 1089456016266 ligand binding site [chemical binding]; other site 1089456016267 flexible hinge region; other site 1089456016268 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1089456016269 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1089456016270 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 1089456016271 metal ion-dependent adhesion site (MIDAS); other site 1089456016272 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 1089456016273 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1089456016274 Low-spin heme binding site [chemical binding]; other site 1089456016275 D-pathway; other site 1089456016276 Putative water exit pathway; other site 1089456016277 Binuclear center (active site) [active] 1089456016278 K-pathway; other site 1089456016279 Putative proton exit pathway; other site 1089456016280 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456016281 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 1089456016282 Subunit I/III interface [polypeptide binding]; other site 1089456016283 MoxR-like ATPases [General function prediction only]; Region: COG0714 1089456016284 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 1089456016285 Walker A motif; other site 1089456016286 ATP binding site [chemical binding]; other site 1089456016287 Walker B motif; other site 1089456016288 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1089456016289 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456016290 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456016291 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1089456016292 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 1089456016293 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456016294 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456016295 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1089456016296 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456016297 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456016298 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456016299 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456016300 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 1089456016301 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 1089456016302 FeS/SAM binding site; other site 1089456016303 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1089456016304 active site 1089456016305 SAM binding site [chemical binding]; other site 1089456016306 homodimer interface [polypeptide binding]; other site 1089456016307 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456016308 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1089456016309 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1089456016310 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 1089456016311 structural tetrad; other site 1089456016312 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1089456016313 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1089456016314 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456016315 active site 1089456016316 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1089456016317 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1089456016318 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1089456016319 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456016320 active site 1089456016321 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1089456016322 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1089456016323 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1089456016324 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456016325 active site 1089456016326 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1089456016327 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1089456016328 AAA domain; Region: AAA_26; pfam13500 1089456016329 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1089456016330 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 1089456016331 S-adenosylmethionine binding site [chemical binding]; other site 1089456016332 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456016333 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1089456016334 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 1089456016335 substrate-cofactor binding pocket; other site 1089456016336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456016337 catalytic residue [active] 1089456016338 biotin synthase; Provisional; Region: PRK15108 1089456016339 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 1089456016340 FeS/SAM binding site; other site 1089456016341 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1089456016342 Fimbrial protein; Region: Fimbrial; cl01416 1089456016343 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1089456016344 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1089456016345 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1089456016346 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 1089456016347 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456016348 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456016349 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1089456016350 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 1089456016351 carboxyltransferase (CT) interaction site; other site 1089456016352 biotinylation site [posttranslational modification]; other site 1089456016353 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 1089456016354 putative active site [active] 1089456016355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456016356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456016357 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 1089456016358 putative substrate binding pocket [chemical binding]; other site 1089456016359 dimerization interface [polypeptide binding]; other site 1089456016360 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1089456016361 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456016362 active site 1089456016363 lipoprotein; Provisional; Region: PRK10759 1089456016364 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1089456016365 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1089456016366 TOBE domain; Region: TOBE; cl01440 1089456016367 TOBE domain; Region: TOBE; cl01440 1089456016368 serine/threonine protein kinase; Provisional; Region: PRK11768 1089456016369 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1089456016370 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1089456016371 EamA-like transporter family; Region: EamA; pfam00892 1089456016372 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1089456016373 ACT domain; Region: ACT_6; pfam13740 1089456016374 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1089456016375 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456016376 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456016377 Coenzyme A binding pocket [chemical binding]; other site 1089456016378 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 1089456016379 active site 1089456016380 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1089456016381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456016382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456016383 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 1089456016384 dimerization interface [polypeptide binding]; other site 1089456016385 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456016386 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456016387 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 1089456016388 putative substrate binding pocket [chemical binding]; other site 1089456016389 dimerization interface [polypeptide binding]; other site 1089456016390 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1089456016391 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1089456016392 Na binding site [ion binding]; other site 1089456016393 putative substrate binding site [chemical binding]; other site 1089456016394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456016395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456016396 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 1089456016397 CoenzymeA binding site [chemical binding]; other site 1089456016398 subunit interaction site [polypeptide binding]; other site 1089456016399 PHB binding site; other site 1089456016400 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456016401 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 1089456016402 C-terminal domain interface [polypeptide binding]; other site 1089456016403 GSH binding site (G-site) [chemical binding]; other site 1089456016404 dimer interface [polypeptide binding]; other site 1089456016405 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1089456016406 N-terminal domain interface [polypeptide binding]; other site 1089456016407 dimer interface [polypeptide binding]; other site 1089456016408 substrate binding pocket (H-site) [chemical binding]; other site 1089456016409 RNA polymerase sigma factor; Reviewed; Region: PRK12523 1089456016410 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456016411 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 1089456016412 DNA binding residues [nucleotide binding] 1089456016413 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1089456016414 FecR protein; Region: FecR; pfam04773 1089456016415 Secretin and TonB N terminus short domain; Region: STN; smart00965 1089456016416 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1089456016417 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 1089456016418 N-terminal plug; other site 1089456016419 ligand-binding site [chemical binding]; other site 1089456016420 Protein phosphatase 2C; Region: PP2C_2; pfam13672 1089456016421 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1089456016422 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1089456016423 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 1089456016424 putative C-terminal domain interface [polypeptide binding]; other site 1089456016425 putative GSH binding site (G-site) [chemical binding]; other site 1089456016426 putative dimer interface [polypeptide binding]; other site 1089456016427 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1089456016428 N-terminal domain interface [polypeptide binding]; other site 1089456016429 dimer interface [polypeptide binding]; other site 1089456016430 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 1089456016431 sensory histidine kinase CreC; Provisional; Region: PRK11100 1089456016432 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 1089456016433 dimer interface [polypeptide binding]; other site 1089456016434 phosphorylation site [posttranslational modification] 1089456016435 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456016436 ATP binding site [chemical binding]; other site 1089456016437 G-X-G motif; other site 1089456016438 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1089456016439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456016440 active site 1089456016441 phosphorylation site [posttranslational modification] 1089456016442 intermolecular recognition site; other site 1089456016443 dimerization interface [polypeptide binding]; other site 1089456016444 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 1089456016445 DNA binding site [nucleotide binding] 1089456016446 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1089456016447 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1089456016448 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1089456016449 putative acyl-acceptor binding pocket; other site 1089456016450 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1089456016451 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1089456016452 Clp amino terminal domain; Region: Clp_N; pfam02861 1089456016453 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 1089456016454 Walker A motif; other site 1089456016455 ATP binding site [chemical binding]; other site 1089456016456 Walker B motif; other site 1089456016457 arginine finger; other site 1089456016458 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 1089456016459 Walker A motif; other site 1089456016460 ATP binding site [chemical binding]; other site 1089456016461 Walker B motif; other site 1089456016462 arginine finger; other site 1089456016463 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1089456016464 putative transporter; Provisional; Region: PRK10504 1089456016465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456016466 putative substrate translocation pore; other site 1089456016467 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456016468 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1089456016469 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 1089456016470 DNA-binding site [nucleotide binding]; DNA binding site 1089456016471 RNA-binding motif; other site 1089456016472 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1089456016473 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 1089456016474 ATP binding site [chemical binding]; other site 1089456016475 Mg++ binding site [ion binding]; other site 1089456016476 motif III; other site 1089456016477 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 1089456016478 nucleotide binding region [chemical binding]; other site 1089456016479 ATP-binding site [chemical binding]; other site 1089456016480 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1089456016481 putative RNA binding site [nucleotide binding]; other site 1089456016482 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1089456016483 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1089456016484 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1089456016485 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456016486 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 1089456016487 substrate binding pocket [chemical binding]; other site 1089456016488 membrane-bound complex binding site; other site 1089456016489 hinge residues; other site 1089456016490 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 1089456016491 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1089456016492 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1089456016493 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1089456016494 dimer interface [polypeptide binding]; other site 1089456016495 active site residues [active] 1089456016496 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1089456016497 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1089456016498 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 1089456016499 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1089456016500 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 1089456016501 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456016502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456016503 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 1089456016504 dimerization interface [polypeptide binding]; other site 1089456016505 substrate binding pocket [chemical binding]; other site 1089456016506 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1089456016507 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1089456016508 FAD binding site [chemical binding]; other site 1089456016509 substrate binding pocket [chemical binding]; other site 1089456016510 catalytic base [active] 1089456016511 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1089456016512 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1089456016513 allantoate amidohydrolase; Reviewed; Region: PRK09290 1089456016514 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1089456016515 active site 1089456016516 metal binding site [ion binding]; metal-binding site 1089456016517 dimer interface [polypeptide binding]; other site 1089456016518 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1089456016519 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1089456016520 Na binding site [ion binding]; other site 1089456016521 putative substrate binding site [chemical binding]; other site 1089456016522 phenylhydantoinase; Validated; Region: PRK08323 1089456016523 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 1089456016524 tetramer interface [polypeptide binding]; other site 1089456016525 active site 1089456016526 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1089456016527 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1089456016528 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1089456016529 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 1089456016530 homodimer interface [polypeptide binding]; other site 1089456016531 active site 1089456016532 FMN binding site [chemical binding]; other site 1089456016533 substrate binding site [chemical binding]; other site 1089456016534 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1089456016535 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 1089456016536 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1089456016537 Na binding site [ion binding]; other site 1089456016538 putative substrate binding site [chemical binding]; other site 1089456016539 cytosine deaminase; Provisional; Region: PRK09230 1089456016540 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 1089456016541 active site 1089456016542 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1089456016543 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456016544 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1089456016545 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1089456016546 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1089456016547 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1089456016548 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 1089456016549 N-terminal plug; other site 1089456016550 ligand-binding site [chemical binding]; other site 1089456016551 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1089456016552 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1089456016553 homotetramer interface [polypeptide binding]; other site 1089456016554 ligand binding site [chemical binding]; other site 1089456016555 catalytic site [active] 1089456016556 NAD binding site [chemical binding]; other site 1089456016557 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1089456016558 HD domain; Region: HD_4; pfam13328 1089456016559 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 1089456016560 FAD binding site [chemical binding]; other site 1089456016561 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1089456016562 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 1089456016563 ATP binding site [chemical binding]; other site 1089456016564 Mg++ binding site [ion binding]; other site 1089456016565 motif III; other site 1089456016566 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 1089456016567 nucleotide binding region [chemical binding]; other site 1089456016568 ATP-binding site [chemical binding]; other site 1089456016569 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1089456016570 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1089456016571 Protein export membrane protein; Region: SecD_SecF; cl14618 1089456016572 Protein export membrane protein; Region: SecD_SecF; cl14618 1089456016573 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 1089456016574 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456016575 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456016576 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1089456016577 MarR family; Region: MarR; pfam01047 1089456016578 hypothetical protein; Provisional; Region: PRK03757 1089456016579 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1089456016580 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1089456016581 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456016582 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1089456016583 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 1089456016584 inhibitor-cofactor binding pocket; inhibition site 1089456016585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456016586 catalytic residue [active] 1089456016587 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1089456016588 RNA methyltransferase, RsmE family; Region: TIGR00046 1089456016589 LysE type translocator; Region: LysE; pfam01810 1089456016590 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456016591 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456016592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456016593 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456016594 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 1089456016595 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1089456016596 CheB methylesterase; Region: CheB_methylest; pfam01339 1089456016597 Hpt domain; Region: Hpt; pfam01627 1089456016598 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 1089456016599 putative binding surface; other site 1089456016600 active site 1089456016601 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 1089456016602 putative binding surface; other site 1089456016603 active site 1089456016604 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 1089456016605 putative binding surface; other site 1089456016606 active site 1089456016607 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 1089456016608 putative binding surface; other site 1089456016609 active site 1089456016610 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 1089456016611 putative binding surface; other site 1089456016612 active site 1089456016613 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1089456016614 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1089456016615 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456016616 ATP binding site [chemical binding]; other site 1089456016617 Mg2+ binding site [ion binding]; other site 1089456016618 G-X-G motif; other site 1089456016619 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 1089456016620 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456016621 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456016622 active site 1089456016623 phosphorylation site [posttranslational modification] 1089456016624 intermolecular recognition site; other site 1089456016625 dimerization interface [polypeptide binding]; other site 1089456016626 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1089456016627 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1089456016628 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1089456016629 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1089456016630 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1089456016631 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1089456016632 dimer interface [polypeptide binding]; other site 1089456016633 putative CheW interface [polypeptide binding]; other site 1089456016634 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 1089456016635 putative CheA interaction surface; other site 1089456016636 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456016637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456016638 active site 1089456016639 phosphorylation site [posttranslational modification] 1089456016640 intermolecular recognition site; other site 1089456016641 dimerization interface [polypeptide binding]; other site 1089456016642 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456016643 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456016644 active site 1089456016645 phosphorylation site [posttranslational modification] 1089456016646 intermolecular recognition site; other site 1089456016647 dimerization interface [polypeptide binding]; other site 1089456016648 glutathione synthetase; Provisional; Region: PRK05246 1089456016649 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1089456016650 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1089456016651 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1089456016652 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1089456016653 hypothetical protein; Validated; Region: PRK00228 1089456016654 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1089456016655 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1089456016656 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456016657 active site 1089456016658 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1089456016659 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1089456016660 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1089456016661 dihydroorotase; Validated; Region: pyrC; PRK09357 1089456016662 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 1089456016663 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 1089456016664 active site 1089456016665 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1089456016666 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 1089456016667 homodimer interface [polypeptide binding]; other site 1089456016668 substrate-cofactor binding pocket; other site 1089456016669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456016670 catalytic residue [active] 1089456016671 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1089456016672 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 1089456016673 dimer interface [polypeptide binding]; other site 1089456016674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456016675 catalytic residue [active] 1089456016676 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 1089456016677 FOG: CBS domain [General function prediction only]; Region: COG0517 1089456016678 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1089456016679 TM2 domain; Region: TM2; cl00984 1089456016680 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1089456016681 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1089456016682 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 1089456016683 Walker A motif; other site 1089456016684 ATP binding site [chemical binding]; other site 1089456016685 Walker B motif; other site 1089456016686 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1089456016687 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 1089456016688 Walker A motif; other site 1089456016689 ATP binding site [chemical binding]; other site 1089456016690 Walker B motif; other site 1089456016691 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1089456016692 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1089456016693 catalytic residue [active] 1089456016694 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1089456016695 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1089456016696 YGGT family; Region: YGGT; pfam02325 1089456016697 YGGT family; Region: YGGT; pfam02325 1089456016698 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 1089456016699 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1089456016700 G1 box; other site 1089456016701 GTP/Mg2+ binding site [chemical binding]; other site 1089456016702 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1089456016703 G2 box; other site 1089456016704 Switch I region; other site 1089456016705 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1089456016706 G3 box; other site 1089456016707 Switch II region; other site 1089456016708 GTP/Mg2+ binding site [chemical binding]; other site 1089456016709 G4 box; other site 1089456016710 G5 box; other site 1089456016711 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 1089456016712 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1089456016713 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456016714 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 1089456016715 S-adenosylmethionine binding site [chemical binding]; other site 1089456016716 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1089456016717 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 1089456016718 active site 1089456016719 dimerization interface [polypeptide binding]; other site 1089456016720 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 1089456016721 HemN family oxidoreductase; Provisional; Region: PRK05660 1089456016722 FeS/SAM binding site; other site 1089456016723 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1089456016724 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1089456016725 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 1089456016726 S-adenosylmethionine binding site [chemical binding]; other site 1089456016727 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 1089456016728 ThiS interaction site; other site 1089456016729 putative active site [active] 1089456016730 tetramer interface [polypeptide binding]; other site 1089456016731 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1089456016732 thiS-thiF/thiG interaction site; other site 1089456016733 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1089456016734 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1089456016735 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 1089456016736 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1089456016737 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1089456016738 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1089456016739 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 1089456016740 DNA binding residues [nucleotide binding] 1089456016741 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1089456016742 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1089456016743 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1089456016744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456016745 Walker A/P-loop; other site 1089456016746 ATP binding site [chemical binding]; other site 1089456016747 Q-loop/lid; other site 1089456016748 ABC transporter signature motif; other site 1089456016749 Walker B; other site 1089456016750 D-loop; other site 1089456016751 H-loop/switch region; other site 1089456016752 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1089456016753 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1089456016754 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 1089456016755 P loop; other site 1089456016756 GTP binding site [chemical binding]; other site 1089456016757 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1089456016758 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1089456016759 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1089456016760 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1089456016761 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1089456016762 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1089456016763 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 1089456016764 S-adenosylmethionine binding site [chemical binding]; other site 1089456016765 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1089456016766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1089456016767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456016768 Coenzyme A binding pocket [chemical binding]; other site 1089456016769 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1089456016770 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456016771 Bacterial transcriptional repressor; Region: TetR; pfam13972 1089456016772 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1089456016773 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1089456016774 NAD(P) binding site [chemical binding]; other site 1089456016775 catalytic residues [active] 1089456016776 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1089456016777 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1089456016778 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1089456016779 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1089456016780 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1089456016781 active site 1089456016782 (T/H)XGH motif; other site 1089456016783 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1089456016784 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1089456016785 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1089456016786 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1089456016787 Sel1-like repeats; Region: SEL1; smart00671 1089456016788 Sel1-like repeats; Region: SEL1; smart00671 1089456016789 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1089456016790 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1089456016791 putative acyl-acceptor binding pocket; other site 1089456016792 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1089456016793 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1089456016794 DNA binding site [nucleotide binding] 1089456016795 catalytic residue [active] 1089456016796 H2TH interface [polypeptide binding]; other site 1089456016797 putative catalytic residues [active] 1089456016798 turnover-facilitating residue; other site 1089456016799 intercalation triad [nucleotide binding]; other site 1089456016800 8OG recognition residue [nucleotide binding]; other site 1089456016801 putative reading head residues; other site 1089456016802 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1089456016803 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1089456016804 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1089456016805 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1089456016806 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1089456016807 proposed catalytic triad [active] 1089456016808 conserved cys residue [active] 1089456016809 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1089456016810 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1089456016811 putative RNA binding site [nucleotide binding]; other site 1089456016812 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 1089456016813 S-adenosylmethionine binding site [chemical binding]; other site 1089456016814 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1089456016815 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1089456016816 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1089456016817 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1089456016818 active site 1089456016819 metal binding site [ion binding]; metal-binding site 1089456016820 homotetramer interface [polypeptide binding]; other site 1089456016821 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 1089456016822 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1089456016823 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 1089456016824 folate binding site [chemical binding]; other site 1089456016825 NADP+ binding site [chemical binding]; other site 1089456016826 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1089456016827 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1089456016828 putative active site [active] 1089456016829 catalytic site [active] 1089456016830 putative metal binding site [ion binding]; other site 1089456016831 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1089456016832 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1089456016833 G1 box; other site 1089456016834 GTP/Mg2+ binding site [chemical binding]; other site 1089456016835 G2 box; other site 1089456016836 Switch I region; other site 1089456016837 G3 box; other site 1089456016838 Switch II region; other site 1089456016839 G4 box; other site 1089456016840 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1089456016841 G5 box; other site 1089456016842 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1089456016843 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1089456016844 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 1089456016845 dimerization interface [polypeptide binding]; other site 1089456016846 active site 1089456016847 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1089456016848 hypothetical protein; Provisional; Region: PRK10621 1089456016849 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1089456016850 Uncharacterized conserved protein [Function unknown]; Region: COG3332 1089456016851 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 1089456016852 PAS fold; Region: PAS_3; pfam08447 1089456016853 putative active site [active] 1089456016854 heme pocket [chemical binding]; other site 1089456016855 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456016856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456016857 metal binding site [ion binding]; metal-binding site 1089456016858 active site 1089456016859 I-site; other site 1089456016860 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1089456016861 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1089456016862 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1089456016863 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1089456016864 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1089456016865 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 1089456016866 putative active site [active] 1089456016867 Ap4A binding site [chemical binding]; other site 1089456016868 nudix motif; other site 1089456016869 putative metal binding site [ion binding]; other site 1089456016870 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1089456016871 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1089456016872 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456016873 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456016874 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1089456016875 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1089456016876 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1089456016877 putative NAD(P) binding site [chemical binding]; other site 1089456016878 active site 1089456016879 DoxX-like family; Region: DoxX_3; pfam13781 1089456016880 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 1089456016881 threonine dehydratase; Reviewed; Region: PRK09224 1089456016882 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 1089456016883 tetramer interface [polypeptide binding]; other site 1089456016884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456016885 catalytic residue [active] 1089456016886 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1089456016887 putative Ile/Val binding site [chemical binding]; other site 1089456016888 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1089456016889 putative Ile/Val binding site [chemical binding]; other site 1089456016890 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 1089456016891 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1089456016892 active site 1089456016893 dimer interface [polypeptide binding]; other site 1089456016894 Uncharacterized conserved protein [Function unknown]; Region: COG3422 1089456016895 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1089456016896 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 1089456016897 trimer interface [polypeptide binding]; other site 1089456016898 active site 1089456016899 substrate binding site [chemical binding]; other site 1089456016900 CoA binding site [chemical binding]; other site 1089456016901 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 1089456016902 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1089456016903 metal binding site [ion binding]; metal-binding site 1089456016904 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 1089456016905 SdiA-regulated; Region: SdiA-regulated; pfam06977 1089456016906 SdiA-regulated; Region: SdiA-regulated; cd09971 1089456016907 putative active site [active] 1089456016908 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1089456016909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456016910 Walker A/P-loop; other site 1089456016911 ATP binding site [chemical binding]; other site 1089456016912 Q-loop/lid; other site 1089456016913 ABC transporter signature motif; other site 1089456016914 Walker B; other site 1089456016915 D-loop; other site 1089456016916 H-loop/switch region; other site 1089456016917 TOBE domain; Region: TOBE_2; pfam08402 1089456016918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456016919 dimer interface [polypeptide binding]; other site 1089456016920 conserved gate region; other site 1089456016921 putative PBP binding loops; other site 1089456016922 ABC-ATPase subunit interface; other site 1089456016923 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1089456016924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456016925 dimer interface [polypeptide binding]; other site 1089456016926 conserved gate region; other site 1089456016927 putative PBP binding loops; other site 1089456016928 ABC-ATPase subunit interface; other site 1089456016929 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1089456016930 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1089456016931 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1089456016932 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1089456016933 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1089456016934 active site 1089456016935 Zn binding site [ion binding]; other site 1089456016936 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 1089456016937 SdiA-regulated; Region: SdiA-regulated; pfam06977 1089456016938 SdiA-regulated; Region: SdiA-regulated; cd09971 1089456016939 putative active site [active] 1089456016940 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 1089456016941 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1089456016942 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456016943 RHS Repeat; Region: RHS_repeat; pfam05593 1089456016944 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456016945 RHS Repeat; Region: RHS_repeat; pfam05593 1089456016946 RHS Repeat; Region: RHS_repeat; pfam05593 1089456016947 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1089456016948 RHS Repeat; Region: RHS_repeat; pfam05593 1089456016949 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1089456016950 RHS Repeat; Region: RHS_repeat; pfam05593 1089456016951 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1089456016952 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456016953 Coenzyme A binding pocket [chemical binding]; other site 1089456016954 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 1089456016955 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 1089456016956 CHC2 zinc finger; Region: zf-CHC2; cl17510 1089456016957 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456016958 classical (c) SDRs; Region: SDR_c; cd05233 1089456016959 NAD(P) binding site [chemical binding]; other site 1089456016960 active site 1089456016961 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1089456016962 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1089456016963 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1089456016964 Walker A/P-loop; other site 1089456016965 ATP binding site [chemical binding]; other site 1089456016966 Q-loop/lid; other site 1089456016967 ABC transporter signature motif; other site 1089456016968 Walker B; other site 1089456016969 D-loop; other site 1089456016970 H-loop/switch region; other site 1089456016971 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1089456016972 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 1089456016973 substrate binding pocket [chemical binding]; other site 1089456016974 membrane-bound complex binding site; other site 1089456016975 hinge residues; other site 1089456016976 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456016977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456016978 dimer interface [polypeptide binding]; other site 1089456016979 conserved gate region; other site 1089456016980 putative PBP binding loops; other site 1089456016981 ABC-ATPase subunit interface; other site 1089456016982 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1089456016983 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456016984 dimer interface [polypeptide binding]; other site 1089456016985 conserved gate region; other site 1089456016986 putative PBP binding loops; other site 1089456016987 ABC-ATPase subunit interface; other site 1089456016988 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1089456016989 MarR family; Region: MarR_2; cl17246 1089456016990 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1089456016991 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1089456016992 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1089456016993 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1089456016994 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456016995 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1089456016996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456016997 putative substrate translocation pore; other site 1089456016998 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456016999 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1089456017000 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1089456017001 NAD binding site [chemical binding]; other site 1089456017002 substrate binding site [chemical binding]; other site 1089456017003 homodimer interface [polypeptide binding]; other site 1089456017004 active site 1089456017005 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 1089456017006 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1089456017007 NADP binding site [chemical binding]; other site 1089456017008 active site 1089456017009 putative substrate binding site [chemical binding]; other site 1089456017010 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1089456017011 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1089456017012 substrate binding site; other site 1089456017013 tetramer interface; other site 1089456017014 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1089456017015 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1089456017016 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 1089456017017 dimer interface [polypeptide binding]; other site 1089456017018 phosphorylation site [posttranslational modification] 1089456017019 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456017020 ATP binding site [chemical binding]; other site 1089456017021 Mg2+ binding site [ion binding]; other site 1089456017022 G-X-G motif; other site 1089456017023 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456017024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456017025 active site 1089456017026 phosphorylation site [posttranslational modification] 1089456017027 intermolecular recognition site; other site 1089456017028 dimerization interface [polypeptide binding]; other site 1089456017029 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 1089456017030 Walker A motif; other site 1089456017031 ATP binding site [chemical binding]; other site 1089456017032 Walker B motif; other site 1089456017033 arginine finger; other site 1089456017034 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456017035 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1089456017036 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1089456017037 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1089456017038 DctM-like transporters; Region: DctM; pfam06808 1089456017039 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1089456017040 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1089456017041 arginine deiminase; Provisional; Region: PRK01388 1089456017042 ornithine carbamoyltransferase; Validated; Region: PRK02102 1089456017043 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1089456017044 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1089456017045 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1089456017046 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 1089456017047 putative substrate binding site [chemical binding]; other site 1089456017048 nucleotide binding site [chemical binding]; other site 1089456017049 nucleotide binding site [chemical binding]; other site 1089456017050 homodimer interface [polypeptide binding]; other site 1089456017051 "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 1089456017052 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1089456017053 active site 1089456017054 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1089456017055 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 1089456017056 active site 1089456017057 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1089456017058 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 1089456017059 dimer interface [polypeptide binding]; other site 1089456017060 ADP-ribose binding site [chemical binding]; other site 1089456017061 active site 1089456017062 nudix motif; other site 1089456017063 metal binding site [ion binding]; metal-binding site 1089456017064 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1089456017065 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 1089456017066 motif II; other site 1089456017067 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1089456017068 BON domain; Region: BON; pfam04972 1089456017069 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1089456017070 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456017071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017072 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 1089456017073 dimerization interface [polypeptide binding]; other site 1089456017074 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 1089456017075 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1089456017076 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 1089456017077 putative molybdopterin cofactor binding site [chemical binding]; other site 1089456017078 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 1089456017079 putative molybdopterin cofactor binding site; other site 1089456017080 Global regulator protein family; Region: CsrA; pfam02599 1089456017081 Chorismate mutase type II; Region: CM_2; cl00693 1089456017082 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 1089456017083 active site 1089456017084 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1089456017085 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1089456017086 putative active site [active] 1089456017087 metal binding site [ion binding]; metal-binding site 1089456017088 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1089456017089 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1089456017090 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1089456017091 active site 1089456017092 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1089456017093 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1089456017094 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1089456017095 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456017096 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456017097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1089456017098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017099 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 1089456017100 dimerization interface [polypeptide binding]; other site 1089456017101 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 1089456017102 dimer interface [polypeptide binding]; other site 1089456017103 FMN binding site [chemical binding]; other site 1089456017104 Fimbrial protein; Region: Fimbrial; cl01416 1089456017105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1089456017106 Transposase; Region: HTH_Tnp_1; pfam01527 1089456017107 HTH-like domain; Region: HTH_21; pfam13276 1089456017108 Integrase core domain; Region: rve; pfam00665 1089456017109 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1089456017110 Integrase core domain; Region: rve_3; pfam13683 1089456017111 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1089456017112 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 1089456017113 active site 1089456017114 substrate-binding site [chemical binding]; other site 1089456017115 metal-binding site [ion binding] 1089456017116 ATP binding site [chemical binding]; other site 1089456017117 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1089456017118 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 1089456017119 dimerization interface [polypeptide binding]; other site 1089456017120 domain crossover interface; other site 1089456017121 redox-dependent activation switch; other site 1089456017122 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1089456017123 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 1089456017124 active site 1089456017125 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 1089456017126 RNA binding surface [nucleotide binding]; other site 1089456017127 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1089456017128 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1089456017129 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1089456017130 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1089456017131 dimer interface [polypeptide binding]; other site 1089456017132 catalytic triad [active] 1089456017133 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1089456017134 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 1089456017135 dimerization interface [polypeptide binding]; other site 1089456017136 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456017137 ATP binding site [chemical binding]; other site 1089456017138 Mg2+ binding site [ion binding]; other site 1089456017139 G-X-G motif; other site 1089456017140 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1089456017141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456017142 active site 1089456017143 phosphorylation site [posttranslational modification] 1089456017144 intermolecular recognition site; other site 1089456017145 dimerization interface [polypeptide binding]; other site 1089456017146 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 1089456017147 DNA binding site [nucleotide binding] 1089456017148 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1089456017149 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1089456017150 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1089456017151 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 1089456017152 RNA binding site [nucleotide binding]; other site 1089456017153 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 1089456017154 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1089456017155 CoenzymeA binding site [chemical binding]; other site 1089456017156 subunit interaction site [polypeptide binding]; other site 1089456017157 PHB binding site; other site 1089456017158 glutamate--cysteine ligase; Provisional; Region: PRK02107 1089456017159 N-acetylglutamate synthase; Validated; Region: PRK05279 1089456017160 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 1089456017161 putative feedback inhibition sensing region; other site 1089456017162 putative nucleotide binding site [chemical binding]; other site 1089456017163 putative substrate binding site [chemical binding]; other site 1089456017164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1089456017165 Coenzyme A binding pocket [chemical binding]; other site 1089456017166 inner membrane protein; Provisional; Region: PRK10995 1089456017167 acetylornithine deacetylase; Provisional; Region: PRK05111 1089456017168 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1089456017169 metal binding site [ion binding]; metal-binding site 1089456017170 putative dimer interface [polypeptide binding]; other site 1089456017171 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1089456017172 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1089456017173 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1089456017174 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1089456017175 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1089456017176 putative active site [active] 1089456017177 putative metal binding residues [ion binding]; other site 1089456017178 signature motif; other site 1089456017179 putative triphosphate binding site [ion binding]; other site 1089456017180 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1089456017181 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1089456017182 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 1089456017183 Walker A motif; other site 1089456017184 ATP binding site [chemical binding]; other site 1089456017185 Walker B motif; other site 1089456017186 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1089456017187 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1089456017188 glycine dehydrogenase; Provisional; Region: PRK12566 1089456017189 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 1089456017190 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1089456017191 catalytic residue [active] 1089456017192 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 1089456017193 tetramer interface [polypeptide binding]; other site 1089456017194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456017195 catalytic residue [active] 1089456017196 glycine cleavage system protein H; Provisional; Region: PRK13380 1089456017197 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 1089456017198 lipoyl attachment site [posttranslational modification]; other site 1089456017199 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1089456017200 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1089456017201 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1089456017202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456017203 dimer interface [polypeptide binding]; other site 1089456017204 conserved gate region; other site 1089456017205 putative PBP binding loops; other site 1089456017206 ABC-ATPase subunit interface; other site 1089456017207 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1089456017208 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1089456017209 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1089456017210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017211 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 1089456017212 dimerization interface [polypeptide binding]; other site 1089456017213 substrate binding pocket [chemical binding]; other site 1089456017214 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456017215 putative substrate translocation pore; other site 1089456017216 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456017217 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1089456017218 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1089456017219 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 1089456017220 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1089456017221 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1089456017222 proline aminopeptidase P II; Provisional; Region: PRK10879 1089456017223 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1089456017224 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 1089456017225 active site 1089456017226 hypothetical protein; Reviewed; Region: PRK02166 1089456017227 TIGR02449 family protein; Region: TIGR02449 1089456017228 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1089456017229 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1089456017230 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1089456017231 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1089456017232 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1089456017233 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1089456017234 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1089456017235 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1089456017236 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1089456017237 Walker A/P-loop; other site 1089456017238 ATP binding site [chemical binding]; other site 1089456017239 Q-loop/lid; other site 1089456017240 ABC transporter signature motif; other site 1089456017241 Walker B; other site 1089456017242 D-loop; other site 1089456017243 H-loop/switch region; other site 1089456017244 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1089456017245 Walker A/P-loop; other site 1089456017246 ATP binding site [chemical binding]; other site 1089456017247 Q-loop/lid; other site 1089456017248 ABC transporter signature motif; other site 1089456017249 Walker B; other site 1089456017250 D-loop; other site 1089456017251 H-loop/switch region; other site 1089456017252 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1089456017253 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1089456017254 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1089456017255 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 1089456017256 HlyD family secretion protein; Region: HlyD_3; pfam13437 1089456017257 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1089456017258 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1089456017259 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1089456017260 NAD(P) binding site [chemical binding]; other site 1089456017261 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1089456017262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456017263 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456017264 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1089456017265 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 1089456017266 catalytic loop [active] 1089456017267 iron binding site [ion binding]; other site 1089456017268 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 1089456017269 FAD binding pocket [chemical binding]; other site 1089456017270 FAD binding motif [chemical binding]; other site 1089456017271 phosphate binding motif [ion binding]; other site 1089456017272 beta-alpha-beta structure motif; other site 1089456017273 NAD binding pocket [chemical binding]; other site 1089456017274 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1089456017275 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1089456017276 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1089456017277 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1089456017278 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 1089456017279 RNA binding site [nucleotide binding]; other site 1089456017280 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 1089456017281 multimer interface [polypeptide binding]; other site 1089456017282 Walker A motif; other site 1089456017283 ATP binding site [chemical binding]; other site 1089456017284 Walker B motif; other site 1089456017285 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 1089456017286 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1089456017287 catalytic residues [active] 1089456017288 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1089456017289 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1089456017290 polyphosphate kinase; Provisional; Region: PRK05443 1089456017291 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1089456017292 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1089456017293 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1089456017294 putative domain interface [polypeptide binding]; other site 1089456017295 putative active site [active] 1089456017296 catalytic site [active] 1089456017297 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1089456017298 putative domain interface [polypeptide binding]; other site 1089456017299 putative active site [active] 1089456017300 catalytic site [active] 1089456017301 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 1089456017302 dimer interface [polypeptide binding]; other site 1089456017303 active site 1089456017304 aspartate-rich active site metal binding site; other site 1089456017305 allosteric magnesium binding site [ion binding]; other site 1089456017306 Schiff base residues; other site 1089456017307 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1089456017308 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1089456017309 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1089456017310 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1089456017311 conserved cys residue [active] 1089456017312 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 1089456017313 CoenzymeA binding site [chemical binding]; other site 1089456017314 subunit interaction site [polypeptide binding]; other site 1089456017315 PHB binding site; other site 1089456017316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1089456017317 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1089456017318 Cytochrome c; Region: Cytochrom_C; pfam00034 1089456017319 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1089456017320 LysE type translocator; Region: LysE; cl00565 1089456017321 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1089456017322 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1089456017323 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1089456017324 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1089456017325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456017326 Walker A/P-loop; other site 1089456017327 ATP binding site [chemical binding]; other site 1089456017328 Q-loop/lid; other site 1089456017329 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456017330 ABC transporter; Region: ABC_tran_2; pfam12848 1089456017331 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1089456017332 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1089456017333 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1089456017334 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1089456017335 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1089456017336 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1089456017337 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1089456017338 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1089456017339 HemY protein N-terminus; Region: HemY_N; pfam07219 1089456017340 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 1089456017341 binding surface 1089456017342 TPR motif; other site 1089456017343 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1089456017344 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1089456017345 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1089456017346 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 1089456017347 active site 1089456017348 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1089456017349 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 1089456017350 domain interfaces; other site 1089456017351 active site 1089456017352 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1089456017353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456017354 active site 1089456017355 phosphorylation site [posttranslational modification] 1089456017356 intermolecular recognition site; other site 1089456017357 dimerization interface [polypeptide binding]; other site 1089456017358 LytTr DNA-binding domain; Region: LytTR; pfam04397 1089456017359 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1089456017360 Histidine kinase; Region: His_kinase; pfam06580 1089456017361 argininosuccinate lyase; Provisional; Region: PRK00855 1089456017362 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1089456017363 active sites [active] 1089456017364 tetramer interface [polypeptide binding]; other site 1089456017365 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1089456017366 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1089456017367 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1089456017368 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1089456017369 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1089456017370 Cl binding site [ion binding]; other site 1089456017371 oligomer interface [polypeptide binding]; other site 1089456017372 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1089456017373 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 1089456017374 substrate binding pocket [chemical binding]; other site 1089456017375 membrane-bound complex binding site; other site 1089456017376 hinge residues; other site 1089456017377 TIGR02647 family protein; Region: DNA 1089456017378 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 1089456017379 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1089456017380 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1089456017381 Uncharacterized conserved protein [Function unknown]; Region: COG4278 1089456017382 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1089456017383 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1089456017384 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1089456017385 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 1089456017386 putative iron binding site [ion binding]; other site 1089456017387 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1089456017388 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1089456017389 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1089456017390 active site 1089456017391 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1089456017392 substrate binding site [chemical binding]; other site 1089456017393 catalytic residues [active] 1089456017394 dimer interface [polypeptide binding]; other site 1089456017395 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1089456017396 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1089456017397 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1089456017398 Protein of unknown function, DUF484; Region: DUF484; pfam04340 1089456017399 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1089456017400 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 1089456017401 active site 1089456017402 DNA binding site [nucleotide binding] 1089456017403 Int/Topo IB signature motif; other site 1089456017404 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1089456017405 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 1089456017406 motif II; other site 1089456017407 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 1089456017408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456017409 DNA-binding site [nucleotide binding]; DNA binding site 1089456017410 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 1089456017411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456017412 homodimer interface [polypeptide binding]; other site 1089456017413 catalytic residue [active] 1089456017414 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1089456017415 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1089456017416 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1089456017417 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1089456017418 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1089456017419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1089456017420 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1089456017421 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1089456017422 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1089456017423 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1089456017424 BCCT family transporter; Region: BCCT; cl00569 1089456017425 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1089456017426 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1089456017427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017428 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 1089456017429 dimerization interface [polypeptide binding]; other site 1089456017430 substrate binding pocket [chemical binding]; other site 1089456017431 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456017432 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456017433 metal binding site [ion binding]; metal-binding site 1089456017434 active site 1089456017435 I-site; other site 1089456017436 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 1089456017437 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1089456017438 Part of AAA domain; Region: AAA_19; pfam13245 1089456017439 Family description; Region: UvrD_C_2; pfam13538 1089456017440 pyruvate dehydrogenase; Provisional; Region: PRK09124 1089456017441 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1089456017442 PYR/PP interface [polypeptide binding]; other site 1089456017443 dimer interface [polypeptide binding]; other site 1089456017444 tetramer interface [polypeptide binding]; other site 1089456017445 TPP binding site [chemical binding]; other site 1089456017446 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1089456017447 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 1089456017448 TPP-binding site [chemical binding]; other site 1089456017449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456017450 active site 1089456017451 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1089456017452 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1089456017453 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1089456017454 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1089456017455 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 1089456017456 non-specific DNA binding site [nucleotide binding]; other site 1089456017457 salt bridge; other site 1089456017458 sequence-specific DNA binding site [nucleotide binding]; other site 1089456017459 Cupin domain; Region: Cupin_2; pfam07883 1089456017460 alanine racemase; Reviewed; Region: dadX; PRK03646 1089456017461 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1089456017462 active site 1089456017463 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1089456017464 substrate binding site [chemical binding]; other site 1089456017465 catalytic residues [active] 1089456017466 dimer interface [polypeptide binding]; other site 1089456017467 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 1089456017468 homotrimer interaction site [polypeptide binding]; other site 1089456017469 putative active site [active] 1089456017470 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1089456017471 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1089456017472 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 1089456017473 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1089456017474 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1089456017475 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1089456017476 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 1089456017477 putative DNA binding site [nucleotide binding]; other site 1089456017478 putative Zn2+ binding site [ion binding]; other site 1089456017479 AsnC family; Region: AsnC_trans_reg; pfam01037 1089456017480 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456017481 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1089456017482 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1089456017483 PLD-like domain; Region: PLDc_2; pfam13091 1089456017484 putative active site [active] 1089456017485 catalytic site [active] 1089456017486 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1089456017487 PLD-like domain; Region: PLDc_2; pfam13091 1089456017488 putative active site [active] 1089456017489 catalytic site [active] 1089456017490 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456017491 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1089456017492 putative substrate translocation pore; other site 1089456017493 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1089456017494 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1089456017495 NAD(P) binding site [chemical binding]; other site 1089456017496 catalytic residues [active] 1089456017497 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1089456017498 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 1089456017499 inhibitor-cofactor binding pocket; inhibition site 1089456017500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456017501 catalytic residue [active] 1089456017502 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1089456017503 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1089456017504 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1089456017505 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1089456017506 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1089456017507 peptide binding site [polypeptide binding]; other site 1089456017508 hypothetical protein; Reviewed; Region: PRK00024 1089456017509 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1089456017510 MPN+ (JAMM) motif; other site 1089456017511 Zinc-binding site [ion binding]; other site 1089456017512 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1089456017513 Flavoprotein; Region: Flavoprotein; pfam02441 1089456017514 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1089456017515 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1089456017516 trimer interface [polypeptide binding]; other site 1089456017517 active site 1089456017518 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1089456017519 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 1089456017520 active site 1089456017521 substrate binding site [chemical binding]; other site 1089456017522 metal binding site [ion binding]; metal-binding site 1089456017523 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 1089456017524 feedback inhibition sensing region; other site 1089456017525 homohexameric interface [polypeptide binding]; other site 1089456017526 nucleotide binding site [chemical binding]; other site 1089456017527 N-acetyl-L-glutamate binding site [chemical binding]; other site 1089456017528 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1089456017529 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1089456017530 SurA N-terminal domain; Region: SurA_N; pfam09312 1089456017531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456017532 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1089456017533 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1089456017534 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 1089456017535 dimer interface [polypeptide binding]; other site 1089456017536 active site 1089456017537 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1089456017538 substrate binding site [chemical binding]; other site 1089456017539 catalytic residue [active] 1089456017540 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1089456017541 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456017542 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1089456017543 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1089456017544 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 1089456017545 active site 1089456017546 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1089456017547 active site 1089456017548 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1089456017549 putative active site [active] 1089456017550 putative catalytic site [active] 1089456017551 putative DNA binding site [nucleotide binding]; other site 1089456017552 putative phosphate binding site [ion binding]; other site 1089456017553 metal binding site A [ion binding]; metal-binding site 1089456017554 putative AP binding site [nucleotide binding]; other site 1089456017555 putative metal binding site B [ion binding]; other site 1089456017556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 1089456017557 ribonuclease PH; Reviewed; Region: rph; PRK00173 1089456017558 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1089456017559 hexamer interface [polypeptide binding]; other site 1089456017560 active site 1089456017561 hypothetical protein; Provisional; Region: PRK11820 1089456017562 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1089456017563 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1089456017564 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1089456017565 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 1089456017566 catalytic site [active] 1089456017567 G-X2-G-X-G-K; other site 1089456017568 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1089456017569 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1089456017570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1089456017571 Zn2+ binding site [ion binding]; other site 1089456017572 Mg2+ binding site [ion binding]; other site 1089456017573 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1089456017574 synthetase active site [active] 1089456017575 NTP binding site [chemical binding]; other site 1089456017576 metal binding site [ion binding]; metal-binding site 1089456017577 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 1089456017578 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1089456017579 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 1089456017580 homotrimer interaction site [polypeptide binding]; other site 1089456017581 putative active site [active] 1089456017582 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1089456017583 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1089456017584 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1089456017585 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456017586 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1089456017587 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1089456017588 putative NAD(P) binding site [chemical binding]; other site 1089456017589 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1089456017590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017591 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 1089456017592 dimerization interface [polypeptide binding]; other site 1089456017593 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1089456017594 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 1089456017595 ssDNA binding site; other site 1089456017596 generic binding surface II; other site 1089456017597 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 1089456017598 ATP binding site [chemical binding]; other site 1089456017599 putative Mg++ binding site [ion binding]; other site 1089456017600 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 1089456017601 nucleotide binding region [chemical binding]; other site 1089456017602 ATP-binding site [chemical binding]; other site 1089456017603 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 1089456017604 putative deacylase active site [active] 1089456017605 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1089456017606 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 1089456017607 IHF dimer interface [polypeptide binding]; other site 1089456017608 IHF - DNA interface [nucleotide binding]; other site 1089456017609 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1089456017610 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1089456017611 Rubredoxin [Energy production and conversion]; Region: COG1773 1089456017612 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 1089456017613 iron binding site [ion binding]; other site 1089456017614 Rubredoxin [Energy production and conversion]; Region: COG1773 1089456017615 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 1089456017616 iron binding site [ion binding]; other site 1089456017617 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1089456017618 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1089456017619 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 1089456017620 Cysteine-rich domain; Region: CCG; pfam02754 1089456017621 Cysteine-rich domain; Region: CCG; pfam02754 1089456017622 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456017623 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1089456017624 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1089456017625 FAD binding domain; Region: FAD_binding_4; pfam01565 1089456017626 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1089456017627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456017628 DNA-binding site [nucleotide binding]; DNA binding site 1089456017629 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1089456017630 Chorismate lyase; Region: Chor_lyase; pfam04345 1089456017631 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1089456017632 UbiA prenyltransferase family; Region: UbiA; pfam01040 1089456017633 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1089456017634 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1089456017635 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1089456017636 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456017637 active site 1089456017638 phosphorylation site [posttranslational modification] 1089456017639 intermolecular recognition site; other site 1089456017640 dimerization interface [polypeptide binding]; other site 1089456017641 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 1089456017642 DNA binding site [nucleotide binding] 1089456017643 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1089456017644 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1089456017645 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 1089456017646 putative active site [active] 1089456017647 heme pocket [chemical binding]; other site 1089456017648 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 1089456017649 dimer interface [polypeptide binding]; other site 1089456017650 phosphorylation site [posttranslational modification] 1089456017651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456017652 ATP binding site [chemical binding]; other site 1089456017653 Mg2+ binding site [ion binding]; other site 1089456017654 G-X-G motif; other site 1089456017655 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1089456017656 Domain of unknown function DUF21; Region: DUF21; pfam01595 1089456017657 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 1089456017658 Transporter associated domain; Region: CorC_HlyC; smart01091 1089456017659 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1089456017660 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1089456017661 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456017662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456017663 Response regulator receiver domain; Region: Response_reg; pfam00072 1089456017664 active site 1089456017665 phosphorylation site [posttranslational modification] 1089456017666 intermolecular recognition site; other site 1089456017667 dimerization interface [polypeptide binding]; other site 1089456017668 transcriptional regulator PhoU; Provisional; Region: PRK11115 1089456017669 PhoU domain; Region: PhoU; pfam01895 1089456017670 PhoU domain; Region: PhoU; pfam01895 1089456017671 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1089456017672 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1089456017673 Walker A/P-loop; other site 1089456017674 ATP binding site [chemical binding]; other site 1089456017675 Q-loop/lid; other site 1089456017676 ABC transporter signature motif; other site 1089456017677 Walker B; other site 1089456017678 D-loop; other site 1089456017679 H-loop/switch region; other site 1089456017680 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1089456017681 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1089456017682 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456017683 dimer interface [polypeptide binding]; other site 1089456017684 conserved gate region; other site 1089456017685 putative PBP binding loops; other site 1089456017686 ABC-ATPase subunit interface; other site 1089456017687 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1089456017688 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456017689 ABC-ATPase subunit interface; other site 1089456017690 PBP superfamily domain; Region: PBP_like_2; cl17296 1089456017691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456017692 metabolite-proton symporter; Region: 2A0106; TIGR00883 1089456017693 putative substrate translocation pore; other site 1089456017694 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 1089456017695 choline dehydrogenase; Validated; Region: PRK02106 1089456017696 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1089456017697 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1089456017698 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1089456017699 tetrameric interface [polypeptide binding]; other site 1089456017700 NAD binding site [chemical binding]; other site 1089456017701 catalytic residues [active] 1089456017702 transcriptional regulator BetI; Validated; Region: PRK00767 1089456017703 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1089456017704 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1089456017705 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 1089456017706 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1089456017707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1089456017708 Walker A/P-loop; other site 1089456017709 ATP binding site [chemical binding]; other site 1089456017710 Q-loop/lid; other site 1089456017711 ABC transporter signature motif; other site 1089456017712 Walker B; other site 1089456017713 D-loop; other site 1089456017714 H-loop/switch region; other site 1089456017715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456017716 dimer interface [polypeptide binding]; other site 1089456017717 conserved gate region; other site 1089456017718 putative PBP binding loops; other site 1089456017719 ABC-ATPase subunit interface; other site 1089456017720 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1089456017721 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1089456017722 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1089456017723 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1089456017724 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1089456017725 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1089456017726 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1089456017727 conserved cys residue [active] 1089456017728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1089456017729 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1089456017730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017731 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 1089456017732 putative dimerization interface [polypeptide binding]; other site 1089456017733 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 1089456017734 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1089456017735 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 1089456017736 active site 1089456017737 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1089456017738 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1089456017739 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1089456017740 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1089456017741 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1089456017742 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1089456017743 acetylornithine deacetylase; Provisional; Region: PRK07522 1089456017744 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1089456017745 metal binding site [ion binding]; metal-binding site 1089456017746 putative dimer interface [polypeptide binding]; other site 1089456017747 Uncharacterized conserved protein [Function unknown]; Region: COG3342 1089456017748 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1089456017749 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 1089456017750 homotrimer interaction site [polypeptide binding]; other site 1089456017751 putative active site [active] 1089456017752 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456017753 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1089456017754 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1089456017755 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1089456017756 putative active site [active] 1089456017757 catalytic site [active] 1089456017758 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1089456017759 putative active site [active] 1089456017760 catalytic site [active] 1089456017761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1089456017762 SnoaL-like domain; Region: SnoaL_2; pfam12680 1089456017763 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1089456017764 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1089456017765 active site 1089456017766 V4R domain; Region: V4R; cl15268 1089456017767 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1089456017768 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 1089456017769 putative active site [active] 1089456017770 putative FMN binding site [chemical binding]; other site 1089456017771 putative substrate binding site [chemical binding]; other site 1089456017772 putative catalytic residue [active] 1089456017773 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1089456017774 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1089456017775 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1089456017776 Cysteine-rich domain; Region: CCG; pfam02754 1089456017777 Cysteine-rich domain; Region: CCG; pfam02754 1089456017778 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 1089456017779 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1089456017780 Ligand Binding Site [chemical binding]; other site 1089456017781 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1089456017782 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 1089456017783 Ligand Binding Site [chemical binding]; other site 1089456017784 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1089456017785 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1089456017786 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 1089456017787 non-specific DNA binding site [nucleotide binding]; other site 1089456017788 salt bridge; other site 1089456017789 sequence-specific DNA binding site [nucleotide binding]; other site 1089456017790 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1089456017791 Cell division protein ZapA; Region: ZapA; pfam05164 1089456017792 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1089456017793 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1089456017794 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 1089456017795 [2Fe-2S] cluster binding site [ion binding]; other site 1089456017796 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 1089456017797 putative alpha subunit interface [polypeptide binding]; other site 1089456017798 putative active site [active] 1089456017799 putative substrate binding site [chemical binding]; other site 1089456017800 Fe binding site [ion binding]; other site 1089456017801 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1089456017802 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 1089456017803 FAD binding pocket [chemical binding]; other site 1089456017804 FAD binding motif [chemical binding]; other site 1089456017805 phosphate binding motif [ion binding]; other site 1089456017806 beta-alpha-beta structure motif; other site 1089456017807 NAD binding pocket [chemical binding]; other site 1089456017808 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 1089456017809 catalytic loop [active] 1089456017810 iron binding site [ion binding]; other site 1089456017811 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1089456017812 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 1089456017813 tetramer interface [polypeptide binding]; other site 1089456017814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456017815 catalytic residue [active] 1089456017816 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1089456017817 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 1089456017818 dimer interface [polypeptide binding]; other site 1089456017819 active site 1089456017820 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1089456017821 folate binding site [chemical binding]; other site 1089456017822 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1089456017823 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1089456017824 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1089456017825 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1089456017826 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1089456017827 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1089456017828 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1089456017829 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1089456017830 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1089456017831 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1089456017832 putative active site [active] 1089456017833 putative substrate binding site [chemical binding]; other site 1089456017834 putative cosubstrate binding site; other site 1089456017835 catalytic site [active] 1089456017836 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1089456017837 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1089456017838 NAD binding site [chemical binding]; other site 1089456017839 catalytic Zn binding site [ion binding]; other site 1089456017840 structural Zn binding site [ion binding]; other site 1089456017841 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1089456017842 active site 1089456017843 phosphate binding residues; other site 1089456017844 catalytic residues [active] 1089456017845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3495 1089456017846 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1089456017847 ATP-grasp domain; Region: ATP-grasp; pfam02222 1089456017848 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1089456017849 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1089456017850 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1089456017851 NAD binding site [chemical binding]; other site 1089456017852 substrate binding site [chemical binding]; other site 1089456017853 catalytic Zn binding site [ion binding]; other site 1089456017854 tetramer interface [polypeptide binding]; other site 1089456017855 structural Zn binding site [ion binding]; other site 1089456017856 cell density-dependent motility repressor; Provisional; Region: PRK10082 1089456017857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017858 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 1089456017859 dimerization interface [polypeptide binding]; other site 1089456017860 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1089456017861 Aspartase; Region: Aspartase; cd01357 1089456017862 active sites [active] 1089456017863 tetramer interface [polypeptide binding]; other site 1089456017864 Predicted transporter component [General function prediction only]; Region: COG2391 1089456017865 Sulphur transport; Region: Sulf_transp; pfam04143 1089456017866 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 1089456017867 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 1089456017868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456017869 homodimer interface [polypeptide binding]; other site 1089456017870 catalytic residue [active] 1089456017871 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456017872 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1089456017873 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456017874 tryptophan permease; Provisional; Region: PRK10483 1089456017875 aromatic amino acid transport protein; Region: araaP; TIGR00837 1089456017876 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1089456017877 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1089456017878 active site 1089456017879 catalytic residues [active] 1089456017880 metal binding site [ion binding]; metal-binding site 1089456017881 homodimer binding site [polypeptide binding]; other site 1089456017882 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 1089456017883 carboxyltransferase (CT) interaction site; other site 1089456017884 biotinylation site [posttranslational modification]; other site 1089456017885 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1089456017886 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1089456017887 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1089456017888 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1089456017889 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1089456017890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1089456017891 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 1089456017892 putative dimerization interface [polypeptide binding]; other site 1089456017893 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1089456017894 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1089456017895 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 1089456017896 putative active site [active] 1089456017897 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1089456017898 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1089456017899 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1089456017900 putative protease; Provisional; Region: PRK15452 1089456017901 Peptidase family U32; Region: Peptidase_U32; pfam01136 1089456017902 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 1089456017903 PAS fold; Region: PAS_3; pfam08447 1089456017904 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 1089456017905 heme pocket [chemical binding]; other site 1089456017906 putative active site [active] 1089456017907 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 1089456017908 PAS domain; Region: PAS_9; pfam13426 1089456017909 putative active site [active] 1089456017910 heme pocket [chemical binding]; other site 1089456017911 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456017912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456017913 metal binding site [ion binding]; metal-binding site 1089456017914 active site 1089456017915 I-site; other site 1089456017916 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 1089456017917 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1089456017918 Part of AAA domain; Region: AAA_19; pfam13245 1089456017919 Family description; Region: UvrD_C_2; pfam13538 1089456017920 Predicted membrane protein [Function unknown]; Region: COG2510 1089456017921 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1089456017922 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1089456017923 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1089456017924 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1089456017925 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456017926 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 1089456017927 putative ADP-binding pocket [chemical binding]; other site 1089456017928 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 1089456017929 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456017930 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 1089456017931 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456017932 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1089456017933 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1089456017934 Walker A/P-loop; other site 1089456017935 ATP binding site [chemical binding]; other site 1089456017936 Q-loop/lid; other site 1089456017937 ABC transporter signature motif; other site 1089456017938 Walker B; other site 1089456017939 D-loop; other site 1089456017940 H-loop/switch region; other site 1089456017941 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1089456017942 putative carbohydrate binding site [chemical binding]; other site 1089456017943 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1089456017944 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1089456017945 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1089456017946 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1089456017947 Substrate binding site; other site 1089456017948 Cupin domain; Region: Cupin_2; cl17218 1089456017949 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1089456017950 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1089456017951 NADP-binding site; other site 1089456017952 homotetramer interface [polypeptide binding]; other site 1089456017953 substrate binding site [chemical binding]; other site 1089456017954 homodimer interface [polypeptide binding]; other site 1089456017955 active site 1089456017956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456017957 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1089456017958 NAD(P) binding site [chemical binding]; other site 1089456017959 active site 1089456017960 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 1089456017961 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456017962 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1089456017963 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 1089456017964 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1089456017965 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 1089456017966 S-adenosylmethionine binding site [chemical binding]; other site 1089456017967 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1089456017968 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1089456017969 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1089456017970 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1089456017971 conserverd hypothetical protein; Region: TIGR02448 1089456017972 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1089456017973 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1089456017974 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1089456017975 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1089456017976 Predicted permeases [General function prediction only]; Region: COG0679 1089456017977 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1089456017978 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1089456017979 Citrate transporter; Region: CitMHS; pfam03600 1089456017980 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1089456017981 RF-1 domain; Region: RF-1; cl17422 1089456017982 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1089456017983 hypothetical protein; Reviewed; Region: PRK09588 1089456017984 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 1089456017985 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1089456017986 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1089456017987 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1089456017988 PhoU domain; Region: PhoU; pfam01895 1089456017989 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1089456017990 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1089456017991 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1089456017992 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1089456017993 citrate-proton symporter; Provisional; Region: PRK15075 1089456017994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456017995 putative substrate translocation pore; other site 1089456017996 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1089456017997 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1089456017998 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1089456017999 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1089456018000 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1089456018001 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1089456018002 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456018003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456018004 active site 1089456018005 phosphorylation site [posttranslational modification] 1089456018006 intermolecular recognition site; other site 1089456018007 dimerization interface [polypeptide binding]; other site 1089456018008 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 1089456018009 Walker A motif; other site 1089456018010 ATP binding site [chemical binding]; other site 1089456018011 Walker B motif; other site 1089456018012 arginine finger; other site 1089456018013 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456018014 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 1089456018015 dimerization interface [polypeptide binding]; other site 1089456018016 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1089456018017 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 1089456018018 putative active site [active] 1089456018019 heme pocket [chemical binding]; other site 1089456018020 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 1089456018021 dimer interface [polypeptide binding]; other site 1089456018022 phosphorylation site [posttranslational modification] 1089456018023 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456018024 ATP binding site [chemical binding]; other site 1089456018025 Mg2+ binding site [ion binding]; other site 1089456018026 G-X-G motif; other site 1089456018027 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1089456018028 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1089456018029 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 1089456018030 amidase catalytic site [active] 1089456018031 Zn binding residues [ion binding]; other site 1089456018032 substrate binding site [chemical binding]; other site 1089456018033 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1089456018034 MarC family integral membrane protein; Region: MarC; cl00919 1089456018035 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1089456018036 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1089456018037 metal binding site [ion binding]; metal-binding site 1089456018038 active site 1089456018039 I-site; other site 1089456018040 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1089456018041 putative catalytic site [active] 1089456018042 putative metal binding site [ion binding]; other site 1089456018043 putative phosphate binding site [ion binding]; other site 1089456018044 putative catalytic site [active] 1089456018045 putative phosphate binding site [ion binding]; other site 1089456018046 putative metal binding site [ion binding]; other site 1089456018047 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 1089456018048 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1089456018049 catalytic residues [active] 1089456018050 hinge region; other site 1089456018051 alpha helical domain; other site 1089456018052 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1089456018053 Cytochrome c; Region: Cytochrom_C; cl11414 1089456018054 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1089456018055 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1089456018056 G1 box; other site 1089456018057 GTP/Mg2+ binding site [chemical binding]; other site 1089456018058 Switch I region; other site 1089456018059 G2 box; other site 1089456018060 G3 box; other site 1089456018061 Switch II region; other site 1089456018062 G4 box; other site 1089456018063 G5 box; other site 1089456018064 DNA polymerase I; Provisional; Region: PRK05755 1089456018065 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1089456018066 active site 1089456018067 metal binding site 1 [ion binding]; metal-binding site 1089456018068 putative 5' ssDNA interaction site; other site 1089456018069 metal binding site 3; metal-binding site 1089456018070 metal binding site 2 [ion binding]; metal-binding site 1089456018071 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1089456018072 putative DNA binding site [nucleotide binding]; other site 1089456018073 putative metal binding site [ion binding]; other site 1089456018074 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 1089456018075 active site 1089456018076 catalytic site [active] 1089456018077 substrate binding site [chemical binding]; other site 1089456018078 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1089456018079 active site 1089456018080 DNA binding site [nucleotide binding] 1089456018081 catalytic site [active] 1089456018082 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1089456018083 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1089456018084 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 1089456018085 putative active site [active] 1089456018086 putative substrate binding site [chemical binding]; other site 1089456018087 ATP binding site [chemical binding]; other site 1089456018088 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 1089456018089 TSCPD domain; Region: TSCPD; pfam12637 1089456018090 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1089456018091 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1089456018092 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1089456018093 active site 1089456018094 dimer interface [polypeptide binding]; other site 1089456018095 effector binding site; other site 1089456018096 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1089456018097 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1089456018098 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 1089456018099 metal binding site [ion binding]; metal-binding site 1089456018100 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1089456018101 Predicted transcriptional regulators [Transcription]; Region: COG1695 1089456018102 metal binding site 2 [ion binding]; metal-binding site 1089456018103 putative DNA binding helix; other site 1089456018104 metal binding site 1 [ion binding]; metal-binding site 1089456018105 dimer interface [polypeptide binding]; other site 1089456018106 structural Zn2+ binding site [ion binding]; other site 1089456018107 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1089456018108 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1089456018109 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1089456018110 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 1089456018111 dimer interface [polypeptide binding]; other site 1089456018112 putative PBP binding regions; other site 1089456018113 ABC-ATPase subunit interface; other site 1089456018114 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1089456018115 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1089456018116 Walker A/P-loop; other site 1089456018117 ATP binding site [chemical binding]; other site 1089456018118 Q-loop/lid; other site 1089456018119 ABC transporter signature motif; other site 1089456018120 Walker B; other site 1089456018121 D-loop; other site 1089456018122 H-loop/switch region; other site 1089456018123 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 1089456018124 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1089456018125 dimer interface [polypeptide binding]; other site 1089456018126 conserved gate region; other site 1089456018127 ABC-ATPase subunit interface; other site 1089456018128 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1089456018129 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1089456018130 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1089456018131 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1089456018132 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 1089456018133 putative active site [active] 1089456018134 Isochorismatase family; Region: Isochorismatase; pfam00857 1089456018135 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 1089456018136 catalytic triad [active] 1089456018137 conserved cis-peptide bond; other site 1089456018138 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1089456018139 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456018140 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1089456018141 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1089456018142 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1089456018143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1089456018144 active site 1089456018145 phosphorylation site [posttranslational modification] 1089456018146 intermolecular recognition site; other site 1089456018147 dimerization interface [polypeptide binding]; other site 1089456018148 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 1089456018149 Walker A motif; other site 1089456018150 ATP binding site [chemical binding]; other site 1089456018151 Walker B motif; other site 1089456018152 arginine finger; other site 1089456018153 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1089456018154 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1089456018155 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 1089456018156 dimer interface [polypeptide binding]; other site 1089456018157 phosphorylation site [posttranslational modification] 1089456018158 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1089456018159 ATP binding site [chemical binding]; other site 1089456018160 Mg2+ binding site [ion binding]; other site 1089456018161 G-X-G motif; other site 1089456018162 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1089456018163 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1089456018164 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1089456018165 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1089456018166 pyridoxamine kinase; Validated; Region: PRK05756 1089456018167 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 1089456018168 pyridoxal binding site [chemical binding]; other site 1089456018169 dimer interface [polypeptide binding]; other site 1089456018170 ATP binding site [chemical binding]; other site 1089456018171 Predicted membrane protein [Function unknown]; Region: COG1238 1089456018172 putative cation:proton antiport protein; Provisional; Region: PRK10669 1089456018173 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1089456018174 TrkA-N domain; Region: TrkA_N; pfam02254 1089456018175 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 1089456018176 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456018177 classical (c) SDRs; Region: SDR_c; cd05233 1089456018178 NAD(P) binding site [chemical binding]; other site 1089456018179 active site 1089456018180 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1089456018181 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1089456018182 aminotransferase; Validated; Region: PRK07046 1089456018183 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 1089456018184 inhibitor-cofactor binding pocket; inhibition site 1089456018185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1089456018186 catalytic residue [active] 1089456018187 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1089456018188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1089456018189 NAD(P) binding site [chemical binding]; other site 1089456018190 active site 1089456018191 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1089456018192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1089456018193 DNA-binding site [nucleotide binding]; DNA binding site 1089456018194 FCD domain; Region: FCD; pfam07729 1089456018195 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1089456018196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1089456018197 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1089456018198 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1089456018199 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1089456018200 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456018201 putative substrate translocation pore; other site 1089456018202 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1089456018203 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1089456018204 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1089456018205 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1089456018206 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1089456018207 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1089456018208 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1089456018209 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1089456018210 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1089456018211 AMIN domain; Region: AMIN; pfam11741 1089456018212 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1089456018213 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 1089456018214 active site 1089456018215 metal binding site [ion binding]; metal-binding site 1089456018216 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1089456018217 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1089456018218 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 1089456018219 trimer interface [polypeptide binding]; other site 1089456018220 active site 1089456018221 dihydroorotase; Reviewed; Region: PRK09236 1089456018222 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 1089456018223 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 1089456018224 active site 1089456018225 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1089456018226 Beta-lactamase; Region: Beta-lactamase; pfam00144 1089456018227 Uncharacterized conserved protein [Function unknown]; Region: COG4729 1089456018228 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1089456018229 DctM-like transporters; Region: DctM; pfam06808 1089456018230 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1089456018231 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 1089456018232 substrate binding pocket [chemical binding]; other site 1089456018233 membrane-bound complex binding site; other site 1089456018234 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1089456018235 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 1089456018236 S-adenosylmethionine binding site [chemical binding]; other site 1089456018237 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1089456018238 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 1089456018239 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1089456018240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1089456018241 putative substrate translocation pore; other site 1089456018242 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1089456018243 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 1089456018244 ATP binding site [chemical binding]; other site 1089456018245 putative Mg++ binding site [ion binding]; other site 1089456018246 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1089456018247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1089456018248 Transposase; Region: HTH_Tnp_1; pfam01527 1089456018249 HTH-like domain; Region: HTH_21; pfam13276 1089456018250 Integrase core domain; Region: rve; pfam00665 1089456018251 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1089456018252 Integrase core domain; Region: rve_3; pfam13683 1089456018253 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1089456018254 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1089456018255 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1089456018256 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 1089456018257 glutaminase active site [active] 1089456018258 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 1089456018259 dimer interface [polypeptide binding]; other site 1089456018260 active site 1089456018261 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 1089456018262 dimer interface [polypeptide binding]; other site 1089456018263 active site 1089456018264 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1089456018265 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1089456018266 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1089456018267 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1089456018268 Peptidase family M23; Region: Peptidase_M23; pfam01551 1089456018269 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 1089456018270 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1089456018271 Substrate binding site; other site 1089456018272 Mg++ binding site; other site 1089456018273 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 1089456018274 active site 1089456018275 substrate binding site [chemical binding]; other site 1089456018276 CoA binding site [chemical binding]; other site 1089456018277 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1089456018278 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1089456018279 gamma subunit interface [polypeptide binding]; other site 1089456018280 epsilon subunit interface [polypeptide binding]; other site 1089456018281 LBP interface [polypeptide binding]; other site 1089456018282 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1089456018283 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1089456018284 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 1089456018285 alpha subunit interaction interface [polypeptide binding]; other site 1089456018286 Walker A motif; other site 1089456018287 ATP binding site [chemical binding]; other site 1089456018288 Walker B motif; other site 1089456018289 inhibitor binding site; inhibition site 1089456018290 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1089456018291 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1089456018292 core domain interface [polypeptide binding]; other site 1089456018293 delta subunit interface [polypeptide binding]; other site 1089456018294 epsilon subunit interface [polypeptide binding]; other site 1089456018295 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1089456018296 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1089456018297 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 1089456018298 beta subunit interaction interface [polypeptide binding]; other site 1089456018299 Walker A motif; other site 1089456018300 ATP binding site [chemical binding]; other site 1089456018301 Walker B motif; other site 1089456018302 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1089456018303 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1089456018304 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1089456018305 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1089456018306 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1089456018307 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1089456018308 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1089456018309 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1089456018310 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 1089456018311 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1089456018312 ParB-like nuclease domain; Region: ParBc; pfam02195 1089456018313 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1089456018314 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 1089456018315 P-loop; other site 1089456018316 Magnesium ion binding site [ion binding]; other site 1089456018317 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 1089456018318 Magnesium ion binding site [ion binding]; other site 1089456018319 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1089456018320 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1089456018321 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1089456018322 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1089456018323 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1089456018324 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1089456018325 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1089456018326 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1089456018327 G1 box; other site 1089456018328 GTP/Mg2+ binding site [chemical binding]; other site 1089456018329 Switch I region; other site 1089456018330 G2 box; other site 1089456018331 Switch II region; other site 1089456018332 G3 box; other site 1089456018333 G4 box; other site 1089456018334 G5 box; other site 1089456018335 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1089456018336 membrane protein insertase; Provisional; Region: PRK01318 1089456018337 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1089456018338 ribonuclease P; Reviewed; Region: rnpA; PRK00396