-- dump date 20140620_003747 -- class Genbank::misc_feature -- table misc_feature_note -- id note 557722000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 557722000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557722000004 Walker A motif; other site 557722000005 ATP binding site [chemical binding]; other site 557722000006 Walker B motif; other site 557722000007 arginine finger; other site 557722000008 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 557722000009 DnaA box-binding interface [nucleotide binding]; other site 557722000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 557722000011 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 557722000012 putative DNA binding surface [nucleotide binding]; other site 557722000013 dimer interface [polypeptide binding]; other site 557722000014 beta-clamp/clamp loader binding surface; other site 557722000015 beta-clamp/translesion DNA polymerase binding surface; other site 557722000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 557722000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722000018 Walker A/P-loop; other site 557722000019 ATP binding site [chemical binding]; other site 557722000020 Q-loop/lid; other site 557722000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722000022 ABC transporter signature motif; other site 557722000023 Walker B; other site 557722000024 D-loop; other site 557722000025 H-loop/switch region; other site 557722000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 557722000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722000028 Mg2+ binding site [ion binding]; other site 557722000029 G-X-G motif; other site 557722000030 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 557722000031 anchoring element; other site 557722000032 dimer interface [polypeptide binding]; other site 557722000033 ATP binding site [chemical binding]; other site 557722000034 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 557722000035 active site 557722000036 putative metal-binding site [ion binding]; other site 557722000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557722000038 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557722000039 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557722000040 putative acyl-acceptor binding pocket; other site 557722000041 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 557722000042 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 557722000043 active site 557722000044 motif I; other site 557722000045 motif II; other site 557722000046 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 557722000047 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 557722000048 dimer interface [polypeptide binding]; other site 557722000049 motif 1; other site 557722000050 active site 557722000051 motif 2; other site 557722000052 motif 3; other site 557722000053 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 557722000054 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 557722000055 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 557722000056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 557722000057 putative acyl-acceptor binding pocket; other site 557722000058 PilZ domain; Region: PilZ; pfam07238 557722000059 hypothetical protein; Provisional; Region: PRK11212 557722000060 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 557722000061 TPR motif; other site 557722000062 TPR repeat; Region: TPR_11; pfam13414 557722000063 binding surface 557722000064 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 557722000065 TrkA-N domain; Region: TrkA_N; pfam02254 557722000066 TrkA-C domain; Region: TrkA_C; pfam02080 557722000067 TrkA-N domain; Region: TrkA_N; pfam02254 557722000068 TrkA-C domain; Region: TrkA_C; pfam02080 557722000069 16S rRNA methyltransferase B; Provisional; Region: PRK10901 557722000070 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 557722000071 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722000072 S-adenosylmethionine binding site [chemical binding]; other site 557722000073 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 557722000074 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 557722000075 putative active site [active] 557722000076 substrate binding site [chemical binding]; other site 557722000077 putative cosubstrate binding site; other site 557722000078 catalytic site [active] 557722000079 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 557722000080 substrate binding site [chemical binding]; other site 557722000081 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 557722000082 active site 557722000083 catalytic residues [active] 557722000084 metal binding site [ion binding]; metal-binding site 557722000085 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 557722000086 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722000087 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 557722000088 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 557722000089 DNA protecting protein DprA; Region: dprA; TIGR00732 557722000090 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 557722000091 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 557722000092 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 557722000093 NADP binding site [chemical binding]; other site 557722000094 dimer interface [polypeptide binding]; other site 557722000095 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 557722000096 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 557722000097 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 557722000098 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 557722000099 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 557722000100 shikimate binding site; other site 557722000101 NAD(P) binding site [chemical binding]; other site 557722000102 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 557722000103 Zn binding site [ion binding]; other site 557722000104 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 557722000105 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 557722000106 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 557722000107 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 557722000108 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557722000109 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 557722000110 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557722000111 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 557722000112 choline-sulfatase; Region: chol_sulfatase; TIGR03417 557722000113 Sulfatase; Region: Sulfatase; cl17466 557722000114 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 557722000115 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 557722000116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000117 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 557722000118 dimerization interface [polypeptide binding]; other site 557722000119 substrate binding pocket [chemical binding]; other site 557722000120 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 557722000121 putative binding surface; other site 557722000122 active site 557722000123 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722000124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722000125 active site 557722000126 phosphorylation site [posttranslational modification] 557722000127 intermolecular recognition site; other site 557722000128 dimerization interface [polypeptide binding]; other site 557722000129 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 557722000130 DNA binding residues [nucleotide binding] 557722000131 dimerization interface [polypeptide binding]; other site 557722000132 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 557722000133 substrate binding site [chemical binding]; other site 557722000134 active site 557722000135 catalytic residues [active] 557722000136 heterodimer interface [polypeptide binding]; other site 557722000137 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 557722000138 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 557722000139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722000140 catalytic residue [active] 557722000141 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722000142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000143 The C-terminal substrate binding domain of LysR-type transcriptional regulator TrpI, which is involved in control of tryptophan synthesis, contains type 2 periplasmic binding fold; Region: PBP2_TrpI; cd08482 557722000144 putative dimerization interface [polypeptide binding]; other site 557722000145 putative substrate binding pocket [chemical binding]; other site 557722000146 Dodecin; Region: Dodecin; pfam07311 557722000147 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 557722000148 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 557722000149 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 557722000150 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 557722000151 haemagglutination activity domain; Region: Haemagg_act; pfam05860 557722000152 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 557722000153 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 557722000154 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 557722000155 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 557722000156 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557722000157 Predicted membrane protein [Function unknown]; Region: COG3174 557722000158 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 557722000159 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 557722000160 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 557722000161 switch II binding region; other site 557722000162 Rac1 P-loop interaction site [polypeptide binding]; other site 557722000163 GTP binding residues [chemical binding]; other site 557722000164 switch I binding region; other site 557722000165 ADP-ribosyltransferase exoenzyme; Region: ADPrib_exo_Tox; pfam03496 557722000166 active site 557722000167 conformational flexibility of ligand binding pocket; other site 557722000168 ADP-ribosylating toxin turn-turn motif; other site 557722000169 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 557722000170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 557722000171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 557722000172 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 557722000173 sequence-specific DNA binding site [nucleotide binding]; other site 557722000174 salt bridge; other site 557722000175 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 557722000176 active site 557722000177 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 557722000178 dimer interface [polypeptide binding]; other site 557722000179 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 557722000180 Ligand Binding Site [chemical binding]; other site 557722000181 Molecular Tunnel; other site 557722000182 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 557722000183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3812 557722000184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000186 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 557722000187 putative effector binding pocket; other site 557722000188 dimerization interface [polypeptide binding]; other site 557722000189 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557722000190 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 557722000191 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 557722000192 catalytic residues [active] 557722000193 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 557722000194 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 557722000195 Predicted aminopeptidase [General function prediction only]; Region: COG4324 557722000196 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557722000197 Eukaryotic phosphomannomutase; Region: PMM; cl17107 557722000198 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 557722000199 motif II; other site 557722000200 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 557722000201 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 557722000202 trimer interface [polypeptide binding]; other site 557722000203 putative metal binding site [ion binding]; other site 557722000204 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 557722000205 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 557722000206 active site 557722000207 Zn binding site [ion binding]; other site 557722000208 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 557722000209 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 557722000210 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 557722000211 FeS/SAM binding site; other site 557722000212 Uncharacterized conserved protein [Function unknown]; Region: COG1262 557722000213 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 557722000214 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557722000215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722000216 Walker A/P-loop; other site 557722000217 ATP binding site [chemical binding]; other site 557722000218 Q-loop/lid; other site 557722000219 ABC transporter signature motif; other site 557722000220 Walker B; other site 557722000221 D-loop; other site 557722000222 H-loop/switch region; other site 557722000223 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 557722000224 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557722000225 active site 557722000226 ATP binding site [chemical binding]; other site 557722000227 substrate binding site [chemical binding]; other site 557722000228 activation loop (A-loop); other site 557722000229 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 557722000230 metal ion-dependent adhesion site (MIDAS); other site 557722000231 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 557722000232 active site 557722000233 Protein phosphatase 2C; Region: PP2C; pfam00481 557722000234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SciT; COG3913 557722000235 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 557722000236 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 557722000237 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 557722000238 hypothetical protein; Provisional; Region: PRK07033 557722000239 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 557722000240 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722000241 ligand binding site [chemical binding]; other site 557722000242 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 557722000243 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 557722000244 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 557722000245 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 557722000246 phosphopeptide binding site; other site 557722000247 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 557722000248 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 557722000249 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 557722000250 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 557722000251 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 557722000252 Protein of unknown function (DUF877); Region: DUF877; pfam05943 557722000253 Protein of unknown function (DUF796); Region: DUF796; pfam05638 557722000254 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 557722000255 ImpE protein; Region: ImpE; pfam07024 557722000256 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 557722000257 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 557722000258 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 557722000259 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 557722000260 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 557722000261 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722000262 Walker A motif; other site 557722000263 ATP binding site [chemical binding]; other site 557722000264 Walker B motif; other site 557722000265 arginine finger; other site 557722000266 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722000267 Walker A motif; other site 557722000268 ATP binding site [chemical binding]; other site 557722000269 Walker B motif; other site 557722000270 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557722000271 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557722000272 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722000273 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722000274 PAAR motif; Region: PAAR_motif; pfam05488 557722000275 Uncharacterized conserved protein [Function unknown]; Region: COG5435 557722000276 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557722000277 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722000278 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722000279 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 557722000280 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 557722000281 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 557722000282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5351 557722000283 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 557722000284 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 557722000285 conserved hypothetical protein; Region: TIGR02270 557722000286 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 557722000287 active site clefts [active] 557722000288 zinc binding site [ion binding]; other site 557722000289 dimer interface [polypeptide binding]; other site 557722000290 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 557722000291 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 557722000292 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557722000293 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 557722000294 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 557722000295 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 557722000296 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 557722000297 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722000298 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722000299 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 557722000300 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 557722000301 Subunit I/III interface [polypeptide binding]; other site 557722000302 D-pathway; other site 557722000303 Subunit I/VIIc interface [polypeptide binding]; other site 557722000304 Subunit I/IV interface [polypeptide binding]; other site 557722000305 Subunit I/II interface [polypeptide binding]; other site 557722000306 Low-spin heme (heme a) binding site [chemical binding]; other site 557722000307 Subunit I/VIIa interface [polypeptide binding]; other site 557722000308 Subunit I/VIa interface [polypeptide binding]; other site 557722000309 Dimer interface; other site 557722000310 Putative water exit pathway; other site 557722000311 Binuclear center (heme a3/CuB) [ion binding]; other site 557722000312 K-pathway; other site 557722000313 Subunit I/Vb interface [polypeptide binding]; other site 557722000314 Putative proton exit pathway; other site 557722000315 Subunit I/VIb interface; other site 557722000316 Subunit I/VIc interface [polypeptide binding]; other site 557722000317 Electron transfer pathway; other site 557722000318 Subunit I/VIIIb interface [polypeptide binding]; other site 557722000319 Subunit I/VIIb interface [polypeptide binding]; other site 557722000320 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 557722000321 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 557722000322 Subunit III/VIIa interface [polypeptide binding]; other site 557722000323 Phospholipid binding site [chemical binding]; other site 557722000324 Subunit I/III interface [polypeptide binding]; other site 557722000325 Subunit III/VIb interface [polypeptide binding]; other site 557722000326 Subunit III/VIa interface; other site 557722000327 Subunit III/Vb interface [polypeptide binding]; other site 557722000328 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 557722000329 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 557722000330 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 557722000331 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 557722000332 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 557722000333 UbiA prenyltransferase family; Region: UbiA; pfam01040 557722000334 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 557722000335 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557722000336 Cu(I) binding site [ion binding]; other site 557722000337 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557722000338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722000339 Coenzyme A binding pocket [chemical binding]; other site 557722000340 Predicted transcriptional regulators [Transcription]; Region: COG1733 557722000341 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557722000342 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 557722000343 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 557722000344 putative NAD(P) binding site [chemical binding]; other site 557722000345 active site 557722000346 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 557722000347 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 557722000348 putative catalytic residue [active] 557722000349 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 557722000350 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557722000351 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557722000352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722000353 DNA-binding site [nucleotide binding]; DNA binding site 557722000354 FCD domain; Region: FCD; pfam07729 557722000355 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557722000356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 557722000357 DNA-binding site [nucleotide binding]; DNA binding site 557722000358 FCD domain; Region: FCD; pfam07729 557722000359 Aegerolysin; Region: Aegerolysin; pfam06355 557722000360 transcriptional regulator; Provisional; Region: PRK10632 557722000361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000362 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 557722000363 putative effector binding pocket; other site 557722000364 dimerization interface [polypeptide binding]; other site 557722000365 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 557722000366 Predicted transcriptional regulator [Transcription]; Region: COG3905 557722000367 Water Stress and Hypersensitive response; Region: WHy; smart00769 557722000368 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 557722000369 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 557722000370 PhnA protein; Region: PhnA; pfam03831 557722000371 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 557722000372 Spore germination protein; Region: Spore_permease; cl17796 557722000373 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557722000374 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 557722000375 tetrameric interface [polypeptide binding]; other site 557722000376 NAD binding site [chemical binding]; other site 557722000377 catalytic residues [active] 557722000378 Cupin domain; Region: Cupin_2; cl17218 557722000379 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 557722000380 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 557722000381 inhibitor-cofactor binding pocket; inhibition site 557722000382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722000383 catalytic residue [active] 557722000384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000386 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722000387 dimerization interface [polypeptide binding]; other site 557722000388 guanine deaminase; Provisional; Region: PRK09228 557722000389 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 557722000390 active site 557722000391 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 557722000392 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557722000393 Walker A/P-loop; other site 557722000394 ATP binding site [chemical binding]; other site 557722000395 Q-loop/lid; other site 557722000396 ABC transporter signature motif; other site 557722000397 Walker B; other site 557722000398 D-loop; other site 557722000399 H-loop/switch region; other site 557722000400 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557722000401 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557722000402 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 557722000403 TM-ABC transporter signature motif; other site 557722000404 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557722000405 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 557722000406 TM-ABC transporter signature motif; other site 557722000407 peroxiredoxin; Region: AhpC; TIGR03137 557722000408 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 557722000409 dimer interface [polypeptide binding]; other site 557722000410 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557722000411 catalytic triad [active] 557722000412 peroxidatic and resolving cysteines [active] 557722000413 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 557722000414 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 557722000415 catalytic residue [active] 557722000416 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 557722000417 catalytic residues [active] 557722000418 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722000419 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722000420 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 557722000421 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 557722000422 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 557722000423 active site 557722000424 putative substrate binding pocket [chemical binding]; other site 557722000425 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 557722000426 active site 557722000427 tetramer interface [polypeptide binding]; other site 557722000428 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 557722000429 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 557722000430 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 557722000431 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 557722000432 putative ligand binding site [chemical binding]; other site 557722000433 oxidase reductase; Provisional; Region: PTZ00273 557722000434 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 557722000435 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 557722000436 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 557722000437 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 557722000438 active site 557722000439 purine riboside binding site [chemical binding]; other site 557722000440 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 557722000441 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722000442 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 557722000443 DNA binding residues [nucleotide binding] 557722000444 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722000445 FecR protein; Region: FecR; pfam04773 557722000446 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722000447 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557722000448 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 557722000449 N-terminal plug; other site 557722000450 ligand-binding site [chemical binding]; other site 557722000451 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 557722000452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000453 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 557722000454 dimerization interface [polypeptide binding]; other site 557722000455 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 557722000456 heterodimer interface [polypeptide binding]; other site 557722000457 multimer interface [polypeptide binding]; other site 557722000458 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 557722000459 active site 557722000460 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 557722000461 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 557722000462 heterodimer interface [polypeptide binding]; other site 557722000463 active site 557722000464 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 557722000465 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 557722000466 Bacterial transcriptional regulator; Region: IclR; pfam01614 557722000467 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722000468 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722000469 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722000470 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722000471 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722000472 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722000473 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557722000474 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000475 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000476 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 557722000477 putative effector binding pocket; other site 557722000478 dimerization interface [polypeptide binding]; other site 557722000479 outer membrane porin, OprD family; Region: OprD; pfam03573 557722000480 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722000481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722000482 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722000483 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 557722000484 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 557722000485 Nucleoside-binding outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: Tsx; COG3248 557722000486 xanthine permease; Region: pbuX; TIGR03173 557722000487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722000488 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 557722000489 Uncharacterized conserved protein [Function unknown]; Region: COG1739 557722000490 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 557722000491 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 557722000492 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722000493 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722000494 metal binding site [ion binding]; metal-binding site 557722000495 active site 557722000496 I-site; other site 557722000497 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 557722000498 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 557722000499 dimerization interface [polypeptide binding]; other site 557722000500 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 557722000501 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 557722000502 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 557722000503 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722000504 active site 557722000505 phosphorylation site [posttranslational modification] 557722000506 intermolecular recognition site; other site 557722000507 dimerization interface [polypeptide binding]; other site 557722000508 CheB methylesterase; Region: CheB_methylest; pfam01339 557722000509 CheD chemotactic sensory transduction; Region: CheD; cl00810 557722000510 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 557722000511 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 557722000512 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 557722000513 PAS domain; Region: PAS; smart00091 557722000514 PAS domain; Region: PAS_9; pfam13426 557722000515 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722000516 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722000517 dimer interface [polypeptide binding]; other site 557722000518 putative CheW interface [polypeptide binding]; other site 557722000519 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 557722000520 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 557722000521 putative binding surface; other site 557722000522 active site 557722000523 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 557722000524 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 557722000525 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722000526 ATP binding site [chemical binding]; other site 557722000527 G-X-G motif; other site 557722000528 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 557722000529 Response regulator receiver domain; Region: Response_reg; pfam00072 557722000530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722000531 active site 557722000532 phosphorylation site [posttranslational modification] 557722000533 intermolecular recognition site; other site 557722000534 dimerization interface [polypeptide binding]; other site 557722000535 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557722000536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722000537 putative CheW interface [polypeptide binding]; other site 557722000538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000540 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 557722000541 putative effector binding pocket; other site 557722000542 dimerization interface [polypeptide binding]; other site 557722000543 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557722000544 classical (c) SDRs; Region: SDR_c; cd05233 557722000545 NAD(P) binding site [chemical binding]; other site 557722000546 active site 557722000547 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 557722000548 Sulfatase; Region: Sulfatase; pfam00884 557722000549 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557722000550 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557722000551 Walker A/P-loop; other site 557722000552 ATP binding site [chemical binding]; other site 557722000553 Q-loop/lid; other site 557722000554 ABC transporter signature motif; other site 557722000555 Walker B; other site 557722000556 D-loop; other site 557722000557 H-loop/switch region; other site 557722000558 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722000559 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 557722000560 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 557722000561 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722000562 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 557722000563 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 557722000564 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 557722000565 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 557722000566 substrate binding pocket [chemical binding]; other site 557722000567 active site 557722000568 iron coordination sites [ion binding]; other site 557722000569 Predicted permeases [General function prediction only]; Region: COG0679 557722000570 outer membrane porin, OprD family; Region: OprD; pfam03573 557722000571 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 557722000572 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557722000573 active site 557722000574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000576 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 557722000577 dimerization interface [polypeptide binding]; other site 557722000578 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722000579 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 557722000580 N-terminal plug; other site 557722000581 ligand-binding site [chemical binding]; other site 557722000582 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 557722000583 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 557722000584 active site 557722000585 iron coordination sites [ion binding]; other site 557722000586 substrate binding pocket [chemical binding]; other site 557722000587 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 557722000588 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 557722000589 active site 557722000590 iron coordination sites [ion binding]; other site 557722000591 substrate binding pocket [chemical binding]; other site 557722000592 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 557722000593 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 557722000594 ligand binding site [chemical binding]; other site 557722000595 homodimer interface [polypeptide binding]; other site 557722000596 NAD(P) binding site [chemical binding]; other site 557722000597 trimer interface B [polypeptide binding]; other site 557722000598 trimer interface A [polypeptide binding]; other site 557722000599 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 557722000600 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 557722000601 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 557722000602 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 557722000603 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 557722000604 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557722000605 TolR protein; Region: tolR; TIGR02801 557722000606 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 557722000607 Serine hydrolase; Region: Ser_hydrolase; pfam06821 557722000608 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557722000609 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 557722000610 Coenzyme A transferase; Region: CoA_trans; cl17247 557722000611 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 557722000612 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 557722000613 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 557722000614 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 557722000615 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 557722000616 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 557722000617 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 557722000618 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 557722000619 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557722000620 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 557722000621 Malonate transporter MadL subunit; Region: MadL; cl04273 557722000622 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 557722000623 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000624 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000625 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 557722000626 putative dimerization interface [polypeptide binding]; other site 557722000627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000629 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 557722000630 putative substrate binding pocket [chemical binding]; other site 557722000631 dimerization interface [polypeptide binding]; other site 557722000632 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557722000633 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 557722000634 NAD(P) binding site [chemical binding]; other site 557722000635 catalytic residues [active] 557722000636 amino acid transporter; Region: 2A0306; TIGR00909 557722000637 putative aminotransferase; Provisional; Region: PRK12403 557722000638 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 557722000639 inhibitor-cofactor binding pocket; inhibition site 557722000640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722000641 catalytic residue [active] 557722000642 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557722000643 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557722000644 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557722000645 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557722000646 inhibitor site; inhibition site 557722000647 active site 557722000648 dimer interface [polypeptide binding]; other site 557722000649 catalytic residue [active] 557722000650 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 557722000651 intersubunit interface [polypeptide binding]; other site 557722000652 active site 557722000653 Zn2+ binding site [ion binding]; other site 557722000654 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557722000655 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 557722000656 sequence-specific DNA binding site [nucleotide binding]; other site 557722000657 salt bridge; other site 557722000658 Cupin domain; Region: Cupin_2; pfam07883 557722000659 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 557722000660 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 557722000661 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 557722000662 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 557722000663 dimer interface [polypeptide binding]; other site 557722000664 active site 557722000665 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 557722000666 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722000667 putative substrate translocation pore; other site 557722000668 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 557722000669 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 557722000670 tetramer interface [polypeptide binding]; other site 557722000671 active site 557722000672 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557722000673 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 557722000674 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000676 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 557722000677 dimerization interface [polypeptide binding]; other site 557722000678 benzoate transport; Region: 2A0115; TIGR00895 557722000679 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722000680 putative substrate translocation pore; other site 557722000681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722000682 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557722000683 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 557722000684 Bacterial transcriptional regulator; Region: IclR; pfam01614 557722000685 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557722000686 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557722000687 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 557722000688 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557722000689 EamA-like transporter family; Region: EamA; pfam00892 557722000690 outer membrane porin, OprD family; Region: OprD; pfam03573 557722000691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722000692 D-galactonate transporter; Region: 2A0114; TIGR00893 557722000693 putative substrate translocation pore; other site 557722000694 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 557722000695 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 557722000696 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 557722000697 dimer interface [polypeptide binding]; other site 557722000698 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 557722000699 active site 557722000700 Fe binding site [ion binding]; other site 557722000701 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722000702 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722000703 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 557722000704 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 557722000705 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 557722000706 shikimate binding site; other site 557722000707 NAD(P) binding site [chemical binding]; other site 557722000708 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 557722000709 Dehydroquinase class II; Region: DHquinase_II; pfam01220 557722000710 active site 557722000711 trimer interface [polypeptide binding]; other site 557722000712 dimer interface [polypeptide binding]; other site 557722000713 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722000714 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722000715 putative substrate translocation pore; other site 557722000716 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722000717 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 557722000718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722000719 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557722000720 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722000721 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722000722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722000723 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557722000724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722000725 Coenzyme A binding pocket [chemical binding]; other site 557722000726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557722000727 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 557722000728 FOG: CBS domain [General function prediction only]; Region: COG0517 557722000729 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 557722000730 MarR family; Region: MarR_2; cl17246 557722000731 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 557722000732 Predicted membrane protein [Function unknown]; Region: COG3619 557722000733 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 557722000734 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 557722000735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 557722000736 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722000737 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722000738 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 557722000739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 557722000740 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 557722000741 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 557722000742 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 557722000743 tetramerization interface [polypeptide binding]; other site 557722000744 NAD(P) binding site [chemical binding]; other site 557722000745 catalytic residues [active] 557722000746 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 557722000747 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 557722000748 inhibitor-cofactor binding pocket; inhibition site 557722000749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722000750 catalytic residue [active] 557722000751 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722000752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722000753 active site 557722000754 phosphorylation site [posttranslational modification] 557722000755 intermolecular recognition site; other site 557722000756 dimerization interface [polypeptide binding]; other site 557722000757 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 557722000758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722000759 DNA-binding site [nucleotide binding]; DNA binding site 557722000760 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 557722000761 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 557722000762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722000763 homodimer interface [polypeptide binding]; other site 557722000764 catalytic residue [active] 557722000765 Uncharacterized conserved protein [Function unknown]; Region: COG2128 557722000766 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 557722000767 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 557722000768 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557722000769 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000771 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 557722000772 substrate binding pocket [chemical binding]; other site 557722000773 dimerization interface [polypeptide binding]; other site 557722000774 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 557722000775 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722000776 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 557722000777 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557722000778 ligand binding site [chemical binding]; other site 557722000779 flexible hinge region; other site 557722000780 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 557722000781 Predicted membrane protein [Function unknown]; Region: COG4539 557722000782 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 557722000783 Predicted permeases [General function prediction only]; Region: COG0730 557722000784 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 557722000785 dimerization interface [polypeptide binding]; other site 557722000786 putative DNA binding site [nucleotide binding]; other site 557722000787 putative Zn2+ binding site [ion binding]; other site 557722000788 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 557722000789 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 557722000790 Walker A/P-loop; other site 557722000791 ATP binding site [chemical binding]; other site 557722000792 Q-loop/lid; other site 557722000793 ABC transporter signature motif; other site 557722000794 Walker B; other site 557722000795 D-loop; other site 557722000796 H-loop/switch region; other site 557722000797 TOBE-like domain; Region: TOBE_3; pfam12857 557722000798 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557722000799 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722000800 dimer interface [polypeptide binding]; other site 557722000801 conserved gate region; other site 557722000802 putative PBP binding loops; other site 557722000803 ABC-ATPase subunit interface; other site 557722000804 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557722000805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722000806 dimer interface [polypeptide binding]; other site 557722000807 conserved gate region; other site 557722000808 putative PBP binding loops; other site 557722000809 ABC-ATPase subunit interface; other site 557722000810 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 557722000811 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557722000812 Uncharacterized small protein [Function unknown]; Region: COG5583 557722000813 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 557722000814 PAS fold; Region: PAS_3; pfam08447 557722000815 putative active site [active] 557722000816 heme pocket [chemical binding]; other site 557722000817 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 557722000818 PAS domain; Region: PAS_9; pfam13426 557722000819 putative active site [active] 557722000820 heme pocket [chemical binding]; other site 557722000821 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722000822 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722000823 metal binding site [ion binding]; metal-binding site 557722000824 active site 557722000825 I-site; other site 557722000826 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 557722000827 Fatty acid desaturase; Region: FA_desaturase; pfam00487 557722000828 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 557722000829 Di-iron ligands [ion binding]; other site 557722000830 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 557722000831 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557722000832 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 557722000833 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 557722000834 Na binding site [ion binding]; other site 557722000835 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 557722000836 agmatinase; Region: agmatinase; TIGR01230 557722000837 oligomer interface [polypeptide binding]; other site 557722000838 putative active site [active] 557722000839 Mn binding site [ion binding]; other site 557722000840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722000841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722000842 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 557722000843 dimerization interface [polypeptide binding]; other site 557722000844 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 557722000845 PAS fold; Region: PAS_3; pfam08447 557722000846 putative active site [active] 557722000847 heme pocket [chemical binding]; other site 557722000848 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722000849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722000850 metal binding site [ion binding]; metal-binding site 557722000851 active site 557722000852 I-site; other site 557722000853 outer membrane porin, OprD family; Region: OprD; pfam03573 557722000854 agmatine deiminase; Provisional; Region: PRK13551 557722000855 agmatine deiminase; Region: agmatine_aguA; TIGR03380 557722000856 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 557722000857 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 557722000858 putative active site; other site 557722000859 catalytic triad [active] 557722000860 putative dimer interface [polypeptide binding]; other site 557722000861 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722000862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722000863 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557722000864 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722000865 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557722000866 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557722000867 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722000868 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 557722000869 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 557722000870 catalytic triad [active] 557722000871 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557722000872 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722000873 putative aminotransferase; Validated; Region: PRK07480 557722000874 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 557722000875 inhibitor-cofactor binding pocket; inhibition site 557722000876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722000877 catalytic residue [active] 557722000878 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 557722000879 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722000880 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 557722000881 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722000882 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 557722000883 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722000884 Walker A/P-loop; other site 557722000885 ATP binding site [chemical binding]; other site 557722000886 Q-loop/lid; other site 557722000887 ABC transporter signature motif; other site 557722000888 Walker B; other site 557722000889 D-loop; other site 557722000890 H-loop/switch region; other site 557722000891 TOBE domain; Region: TOBE_2; pfam08402 557722000892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722000893 dimer interface [polypeptide binding]; other site 557722000894 conserved gate region; other site 557722000895 putative PBP binding loops; other site 557722000896 ABC-ATPase subunit interface; other site 557722000897 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557722000898 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722000899 dimer interface [polypeptide binding]; other site 557722000900 conserved gate region; other site 557722000901 putative PBP binding loops; other site 557722000902 ABC-ATPase subunit interface; other site 557722000903 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 557722000904 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 557722000905 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 557722000906 active site 557722000907 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722000908 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722000909 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557722000910 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 557722000911 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722000912 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 557722000913 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 557722000914 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 557722000915 Uncharacterized conserved protein [Function unknown]; Region: COG1683 557722000916 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722000917 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722000918 dimer interface [polypeptide binding]; other site 557722000919 conserved gate region; other site 557722000920 putative PBP binding loops; other site 557722000921 ABC-ATPase subunit interface; other site 557722000922 cystine transporter subunit; Provisional; Region: PRK11260 557722000923 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 557722000924 substrate binding pocket [chemical binding]; other site 557722000925 membrane-bound complex binding site; other site 557722000926 hinge residues; other site 557722000927 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 557722000928 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 557722000929 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 557722000930 ligand binding site [chemical binding]; other site 557722000931 NAD binding site [chemical binding]; other site 557722000932 tetramer interface [polypeptide binding]; other site 557722000933 catalytic site [active] 557722000934 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 557722000935 L-serine binding site [chemical binding]; other site 557722000936 ACT domain interface; other site 557722000937 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557722000938 FAD binding domain; Region: FAD_binding_4; pfam01565 557722000939 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557722000940 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 557722000941 SdiA-regulated; Region: SdiA-regulated; pfam06977 557722000942 SdiA-regulated; Region: SdiA-regulated; cd09971 557722000943 putative active site [active] 557722000944 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 557722000945 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 557722000946 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 557722000947 active site 557722000948 Zn binding site [ion binding]; other site 557722000949 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557722000950 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557722000951 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557722000952 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557722000953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722000954 dimer interface [polypeptide binding]; other site 557722000955 conserved gate region; other site 557722000956 putative PBP binding loops; other site 557722000957 ABC-ATPase subunit interface; other site 557722000958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722000959 dimer interface [polypeptide binding]; other site 557722000960 conserved gate region; other site 557722000961 putative PBP binding loops; other site 557722000962 ABC-ATPase subunit interface; other site 557722000963 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557722000964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722000965 Walker A/P-loop; other site 557722000966 ATP binding site [chemical binding]; other site 557722000967 Q-loop/lid; other site 557722000968 ABC transporter signature motif; other site 557722000969 Walker B; other site 557722000970 D-loop; other site 557722000971 H-loop/switch region; other site 557722000972 TOBE domain; Region: TOBE_2; pfam08402 557722000973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 557722000974 SdiA-regulated; Region: SdiA-regulated; cd09971 557722000975 putative active site [active] 557722000976 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 557722000977 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 557722000978 metal binding site [ion binding]; metal-binding site 557722000979 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 557722000980 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 557722000981 trimer interface [polypeptide binding]; other site 557722000982 active site 557722000983 substrate binding site [chemical binding]; other site 557722000984 CoA binding site [chemical binding]; other site 557722000985 Uncharacterized conserved protein [Function unknown]; Region: COG3422 557722000986 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 557722000987 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 557722000988 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557722000989 active site 557722000990 dimer interface [polypeptide binding]; other site 557722000991 threonine dehydratase; Reviewed; Region: PRK09224 557722000992 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 557722000993 tetramer interface [polypeptide binding]; other site 557722000994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722000995 catalytic residue [active] 557722000996 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 557722000997 putative Ile/Val binding site [chemical binding]; other site 557722000998 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 557722000999 putative Ile/Val binding site [chemical binding]; other site 557722001000 Predicted integral membrane protein [Function unknown]; Region: COG5528 557722001001 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 557722001002 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557722001003 putative NAD(P) binding site [chemical binding]; other site 557722001004 active site 557722001005 DoxX-like family; Region: DoxX_3; pfam13781 557722001006 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722001007 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722001008 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557722001009 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557722001010 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 557722001011 putative active site [active] 557722001012 Ap4A binding site [chemical binding]; other site 557722001013 nudix motif; other site 557722001014 putative metal binding site [ion binding]; other site 557722001015 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 557722001016 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 557722001017 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557722001018 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557722001019 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557722001020 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 557722001021 PAS fold; Region: PAS_3; pfam08447 557722001022 putative active site [active] 557722001023 heme pocket [chemical binding]; other site 557722001024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722001025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722001026 metal binding site [ion binding]; metal-binding site 557722001027 active site 557722001028 I-site; other site 557722001029 Uncharacterized conserved protein [Function unknown]; Region: COG3332 557722001030 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557722001031 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 557722001032 thymidylate synthase; Reviewed; Region: thyA; PRK01827 557722001033 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 557722001034 dimerization interface [polypeptide binding]; other site 557722001035 active site 557722001036 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 557722001037 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557722001038 G1 box; other site 557722001039 GTP/Mg2+ binding site [chemical binding]; other site 557722001040 G2 box; other site 557722001041 Switch I region; other site 557722001042 G3 box; other site 557722001043 Switch II region; other site 557722001044 G4 box; other site 557722001045 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 557722001046 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 557722001047 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 557722001048 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 557722001049 putative active site [active] 557722001050 catalytic site [active] 557722001051 putative metal binding site [ion binding]; other site 557722001052 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 557722001053 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 557722001054 folate binding site [chemical binding]; other site 557722001055 NADP+ binding site [chemical binding]; other site 557722001056 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 557722001057 active site 557722001058 metal binding site [ion binding]; metal-binding site 557722001059 homotetramer interface [polypeptide binding]; other site 557722001060 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 557722001061 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 557722001062 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 557722001063 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 557722001064 putative RNA binding site [nucleotide binding]; other site 557722001065 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722001066 S-adenosylmethionine binding site [chemical binding]; other site 557722001067 intracellular protease, PfpI family; Region: PfpI; TIGR01382 557722001068 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 557722001069 proposed catalytic triad [active] 557722001070 conserved cys residue [active] 557722001071 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 557722001072 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 557722001073 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 557722001074 DNA binding site [nucleotide binding] 557722001075 catalytic residue [active] 557722001076 H2TH interface [polypeptide binding]; other site 557722001077 putative catalytic residues [active] 557722001078 turnover-facilitating residue; other site 557722001079 intercalation triad [nucleotide binding]; other site 557722001080 8OG recognition residue [nucleotide binding]; other site 557722001081 putative reading head residues; other site 557722001082 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 557722001083 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557722001084 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557722001085 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 557722001086 putative acyl-acceptor binding pocket; other site 557722001087 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722001088 Sel1-like repeats; Region: SEL1; smart00671 557722001089 Sel1-like repeats; Region: SEL1; smart00671 557722001090 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 557722001091 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 557722001092 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557722001093 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 557722001094 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 557722001095 active site 557722001096 (T/H)XGH motif; other site 557722001097 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 557722001098 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557722001099 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 557722001100 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 557722001101 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 557722001102 NAD(P) binding site [chemical binding]; other site 557722001103 catalytic residues [active] 557722001104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722001105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722001106 Bacterial transcriptional repressor; Region: TetR; pfam13972 557722001107 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 557722001108 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 557722001109 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722001110 S-adenosylmethionine binding site [chemical binding]; other site 557722001111 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557722001112 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557722001113 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557722001114 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557722001115 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557722001116 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 557722001117 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 557722001118 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 557722001119 P loop; other site 557722001120 GTP binding site [chemical binding]; other site 557722001121 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 557722001122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722001123 Walker A/P-loop; other site 557722001124 ATP binding site [chemical binding]; other site 557722001125 Q-loop/lid; other site 557722001126 ABC transporter signature motif; other site 557722001127 Walker B; other site 557722001128 D-loop; other site 557722001129 H-loop/switch region; other site 557722001130 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 557722001131 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 557722001132 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 557722001133 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557722001134 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722001135 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 557722001136 DNA binding residues [nucleotide binding] 557722001137 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 557722001138 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 557722001139 Protein of unknown function (DUF423); Region: DUF423; pfam04241 557722001140 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 557722001141 thiS-thiF/thiG interaction site; other site 557722001142 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 557722001143 ThiS interaction site; other site 557722001144 putative active site [active] 557722001145 tetramer interface [polypeptide binding]; other site 557722001146 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722001147 S-adenosylmethionine binding site [chemical binding]; other site 557722001148 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 557722001149 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 557722001150 HemN family oxidoreductase; Provisional; Region: PRK05660 557722001151 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 557722001152 FeS/SAM binding site; other site 557722001153 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 557722001154 active site 557722001155 dimerization interface [polypeptide binding]; other site 557722001156 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 557722001157 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722001158 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722001159 S-adenosylmethionine binding site [chemical binding]; other site 557722001160 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 557722001161 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 557722001162 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557722001163 G1 box; other site 557722001164 GTP/Mg2+ binding site [chemical binding]; other site 557722001165 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 557722001166 G2 box; other site 557722001167 Switch I region; other site 557722001168 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 557722001169 G3 box; other site 557722001170 Switch II region; other site 557722001171 GTP/Mg2+ binding site [chemical binding]; other site 557722001172 G4 box; other site 557722001173 G5 box; other site 557722001174 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 557722001175 YGGT family; Region: YGGT; pfam02325 557722001176 YGGT family; Region: YGGT; pfam02325 557722001177 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 557722001178 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557722001179 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 557722001180 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557722001181 catalytic residue [active] 557722001182 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 557722001183 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 557722001184 Walker A motif; other site 557722001185 ATP binding site [chemical binding]; other site 557722001186 Walker B motif; other site 557722001187 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 557722001188 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 557722001189 Walker A motif; other site 557722001190 ATP binding site [chemical binding]; other site 557722001191 Walker B motif; other site 557722001192 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557722001193 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 557722001194 TM2 domain; Region: TM2; cl00984 557722001195 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557722001196 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 557722001197 dimer interface [polypeptide binding]; other site 557722001198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722001199 catalytic residue [active] 557722001200 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 557722001201 FOG: CBS domain [General function prediction only]; Region: COG0517 557722001202 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 557722001203 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 557722001204 homodimer interface [polypeptide binding]; other site 557722001205 substrate-cofactor binding pocket; other site 557722001206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722001207 catalytic residue [active] 557722001208 dihydroorotase; Validated; Region: pyrC; PRK09357 557722001209 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 557722001210 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 557722001211 active site 557722001212 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 557722001213 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557722001214 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557722001215 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 557722001216 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722001217 active site 557722001218 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 557722001219 hypothetical protein; Validated; Region: PRK00228 557722001220 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 557722001221 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 557722001222 glutathione synthetase; Provisional; Region: PRK05246 557722001223 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 557722001224 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 557722001225 Response regulator receiver domain; Region: Response_reg; pfam00072 557722001226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722001227 active site 557722001228 phosphorylation site [posttranslational modification] 557722001229 intermolecular recognition site; other site 557722001230 dimerization interface [polypeptide binding]; other site 557722001231 Response regulator receiver domain; Region: Response_reg; pfam00072 557722001232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722001233 active site 557722001234 phosphorylation site [posttranslational modification] 557722001235 intermolecular recognition site; other site 557722001236 dimerization interface [polypeptide binding]; other site 557722001237 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 557722001238 putative CheA interaction surface; other site 557722001239 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 557722001240 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722001241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722001242 dimer interface [polypeptide binding]; other site 557722001243 putative CheW interface [polypeptide binding]; other site 557722001244 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 557722001245 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 557722001246 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 557722001247 Hpt domain; Region: Hpt; pfam01627 557722001248 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 557722001249 putative binding surface; other site 557722001250 active site 557722001251 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 557722001252 putative binding surface; other site 557722001253 active site 557722001254 Hpt domain; Region: Hpt; pfam01627 557722001255 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 557722001256 putative binding surface; other site 557722001257 active site 557722001258 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 557722001259 putative binding surface; other site 557722001260 active site 557722001261 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 557722001262 putative binding surface; other site 557722001263 active site 557722001264 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 557722001265 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 557722001266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722001267 ATP binding site [chemical binding]; other site 557722001268 Mg2+ binding site [ion binding]; other site 557722001269 G-X-G motif; other site 557722001270 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 557722001271 Response regulator receiver domain; Region: Response_reg; pfam00072 557722001272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722001273 active site 557722001274 phosphorylation site [posttranslational modification] 557722001275 intermolecular recognition site; other site 557722001276 dimerization interface [polypeptide binding]; other site 557722001277 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 557722001278 CheB methylesterase; Region: CheB_methylest; pfam01339 557722001279 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 557722001280 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722001281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722001282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722001283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722001284 LysE type translocator; Region: LysE; pfam01810 557722001285 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 557722001286 RNA methyltransferase, RsmE family; Region: TIGR00046 557722001287 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 557722001288 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 557722001289 inhibitor-cofactor binding pocket; inhibition site 557722001290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722001291 catalytic residue [active] 557722001292 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 557722001293 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722001294 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 557722001295 hypothetical protein; Provisional; Region: PRK03757 557722001296 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557722001297 MarR family; Region: MarR; pfam01047 557722001298 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 557722001299 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722001300 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722001301 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 557722001302 Protein export membrane protein; Region: SecD_SecF; cl14618 557722001303 Protein export membrane protein; Region: SecD_SecF; cl14618 557722001304 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557722001305 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 557722001306 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 557722001307 ATP binding site [chemical binding]; other site 557722001308 Mg++ binding site [ion binding]; other site 557722001309 motif III; other site 557722001310 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 557722001311 nucleotide binding region [chemical binding]; other site 557722001312 ATP-binding site [chemical binding]; other site 557722001313 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 557722001314 FAD binding site [chemical binding]; other site 557722001315 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 557722001316 HD domain; Region: HD_4; pfam13328 557722001317 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 557722001318 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 557722001319 homotetramer interface [polypeptide binding]; other site 557722001320 ligand binding site [chemical binding]; other site 557722001321 catalytic site [active] 557722001322 NAD binding site [chemical binding]; other site 557722001323 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557722001324 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 557722001325 N-terminal plug; other site 557722001326 ligand-binding site [chemical binding]; other site 557722001327 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 557722001328 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557722001329 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 557722001330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722001331 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 557722001332 cytosine deaminase; Provisional; Region: PRK09230 557722001333 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 557722001334 active site 557722001335 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 557722001336 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557722001337 Na binding site [ion binding]; other site 557722001338 putative substrate binding site [chemical binding]; other site 557722001339 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 557722001340 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 557722001341 homodimer interface [polypeptide binding]; other site 557722001342 active site 557722001343 FMN binding site [chemical binding]; other site 557722001344 substrate binding site [chemical binding]; other site 557722001345 4Fe-4S binding domain; Region: Fer4_6; pfam12837 557722001346 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 557722001347 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722001348 phenylhydantoinase; Validated; Region: PRK08323 557722001349 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 557722001350 tetramer interface [polypeptide binding]; other site 557722001351 active site 557722001352 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 557722001353 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557722001354 Na binding site [ion binding]; other site 557722001355 putative substrate binding site [chemical binding]; other site 557722001356 allantoate amidohydrolase; Reviewed; Region: PRK09290 557722001357 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 557722001358 active site 557722001359 metal binding site [ion binding]; metal-binding site 557722001360 dimer interface [polypeptide binding]; other site 557722001361 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557722001362 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557722001363 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 557722001364 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722001365 FAD binding site [chemical binding]; other site 557722001366 substrate binding pocket [chemical binding]; other site 557722001367 catalytic base [active] 557722001368 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722001369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722001370 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 557722001371 dimerization interface [polypeptide binding]; other site 557722001372 substrate binding pocket [chemical binding]; other site 557722001373 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 557722001374 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557722001375 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 557722001376 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557722001377 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 557722001378 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 557722001379 dimer interface [polypeptide binding]; other site 557722001380 active site residues [active] 557722001381 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 557722001382 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 557722001383 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557722001384 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 557722001385 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 557722001386 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 557722001387 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 557722001388 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 557722001389 ATP binding site [chemical binding]; other site 557722001390 Mg++ binding site [ion binding]; other site 557722001391 motif III; other site 557722001392 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 557722001393 nucleotide binding region [chemical binding]; other site 557722001394 ATP-binding site [chemical binding]; other site 557722001395 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 557722001396 putative RNA binding site [nucleotide binding]; other site 557722001397 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 557722001398 DNA-binding site [nucleotide binding]; DNA binding site 557722001399 RNA-binding motif; other site 557722001400 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 557722001401 putative transporter; Provisional; Region: PRK10504 557722001402 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722001403 putative substrate translocation pore; other site 557722001404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722001405 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 557722001406 Clp amino terminal domain; Region: Clp_N; pfam02861 557722001407 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722001408 Walker A motif; other site 557722001409 ATP binding site [chemical binding]; other site 557722001410 Walker B motif; other site 557722001411 arginine finger; other site 557722001412 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722001413 Walker A motif; other site 557722001414 ATP binding site [chemical binding]; other site 557722001415 Walker B motif; other site 557722001416 arginine finger; other site 557722001417 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557722001418 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 557722001419 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557722001420 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 557722001421 putative acyl-acceptor binding pocket; other site 557722001422 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 557722001423 DNA-binding response regulator CreB; Provisional; Region: PRK11083 557722001424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722001425 active site 557722001426 phosphorylation site [posttranslational modification] 557722001427 intermolecular recognition site; other site 557722001428 dimerization interface [polypeptide binding]; other site 557722001429 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 557722001430 DNA binding site [nucleotide binding] 557722001431 sensory histidine kinase CreC; Provisional; Region: PRK11100 557722001432 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 557722001433 dimer interface [polypeptide binding]; other site 557722001434 phosphorylation site [posttranslational modification] 557722001435 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722001436 ATP binding site [chemical binding]; other site 557722001437 G-X-G motif; other site 557722001438 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 557722001439 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722001440 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 557722001441 putative C-terminal domain interface [polypeptide binding]; other site 557722001442 putative GSH binding site (G-site) [chemical binding]; other site 557722001443 putative dimer interface [polypeptide binding]; other site 557722001444 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 557722001445 N-terminal domain interface [polypeptide binding]; other site 557722001446 dimer interface [polypeptide binding]; other site 557722001447 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 557722001448 Protein phosphatase 2C; Region: PP2C_2; pfam13672 557722001449 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722001450 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 557722001451 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 557722001452 N-terminal plug; other site 557722001453 ligand-binding site [chemical binding]; other site 557722001454 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722001455 FecR protein; Region: FecR; pfam04773 557722001456 RNA polymerase sigma factor; Reviewed; Region: PRK12523 557722001457 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722001458 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 557722001459 DNA binding residues [nucleotide binding] 557722001460 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722001461 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 557722001462 C-terminal domain interface [polypeptide binding]; other site 557722001463 GSH binding site (G-site) [chemical binding]; other site 557722001464 dimer interface [polypeptide binding]; other site 557722001465 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 557722001466 N-terminal domain interface [polypeptide binding]; other site 557722001467 dimer interface [polypeptide binding]; other site 557722001468 substrate binding pocket (H-site) [chemical binding]; other site 557722001469 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 557722001470 CoenzymeA binding site [chemical binding]; other site 557722001471 subunit interaction site [polypeptide binding]; other site 557722001472 PHB binding site; other site 557722001473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722001474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722001475 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 557722001476 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557722001477 Na binding site [ion binding]; other site 557722001478 putative substrate binding site [chemical binding]; other site 557722001479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722001480 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 557722001481 putative substrate binding pocket [chemical binding]; other site 557722001482 dimerization interface [polypeptide binding]; other site 557722001483 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722001484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722001485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722001486 dimerization interface [polypeptide binding]; other site 557722001487 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722001488 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557722001489 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 557722001490 active site 557722001491 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557722001492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722001493 Coenzyme A binding pocket [chemical binding]; other site 557722001494 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 557722001495 ACT domain; Region: ACT_6; pfam13740 557722001496 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 557722001497 Predicted permeases [General function prediction only]; Region: RarD; COG2962 557722001498 EamA-like transporter family; Region: EamA; pfam00892 557722001499 serine/threonine protein kinase; Provisional; Region: PRK11768 557722001500 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 557722001501 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 557722001502 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 557722001503 TOBE domain; Region: TOBE; cl01440 557722001504 TOBE domain; Region: TOBE; cl01440 557722001505 lipoprotein; Provisional; Region: PRK10759 557722001506 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 557722001507 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722001508 active site 557722001509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722001510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722001511 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 557722001512 putative substrate binding pocket [chemical binding]; other site 557722001513 dimerization interface [polypeptide binding]; other site 557722001514 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 557722001515 putative active site [active] 557722001516 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 557722001517 carboxyltransferase (CT) interaction site; other site 557722001518 biotinylation site [posttranslational modification]; other site 557722001519 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 557722001520 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722001521 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722001522 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557722001523 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 557722001524 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 557722001525 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 557722001526 Fimbrial protein; Region: Fimbrial; pfam00419 557722001527 Fimbrial protein; Region: Fimbrial; pfam00419 557722001528 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 557722001529 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557722001530 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557722001531 biotin synthase; Provisional; Region: PRK15108 557722001532 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 557722001533 FeS/SAM binding site; other site 557722001534 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 557722001535 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 557722001536 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 557722001537 substrate-cofactor binding pocket; other site 557722001538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722001539 catalytic residue [active] 557722001540 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722001541 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 557722001542 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722001543 S-adenosylmethionine binding site [chemical binding]; other site 557722001544 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 557722001545 AAA domain; Region: AAA_26; pfam13500 557722001546 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557722001547 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557722001548 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722001549 active site 557722001550 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557722001551 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557722001552 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557722001553 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722001554 active site 557722001555 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557722001556 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557722001557 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557722001558 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722001559 active site 557722001560 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557722001561 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722001562 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722001563 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 557722001564 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 557722001565 structural tetrad; other site 557722001566 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 557722001567 active site 557722001568 SAM binding site [chemical binding]; other site 557722001569 homodimer interface [polypeptide binding]; other site 557722001570 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 557722001571 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 557722001572 FeS/SAM binding site; other site 557722001573 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722001574 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722001575 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722001576 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722001577 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 557722001578 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722001579 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722001580 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 557722001581 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722001582 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722001583 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 557722001584 MoxR-like ATPases [General function prediction only]; Region: COG0714 557722001585 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722001586 Walker A motif; other site 557722001587 ATP binding site [chemical binding]; other site 557722001588 Walker B motif; other site 557722001589 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 557722001590 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 557722001591 Subunit I/III interface [polypeptide binding]; other site 557722001592 Cytochrome c; Region: Cytochrom_C; pfam00034 557722001593 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 557722001594 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557722001595 Low-spin heme binding site [chemical binding]; other site 557722001596 D-pathway; other site 557722001597 Putative water exit pathway; other site 557722001598 Binuclear center (active site) [active] 557722001599 K-pathway; other site 557722001600 Putative proton exit pathway; other site 557722001601 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 557722001602 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 557722001603 metal ion-dependent adhesion site (MIDAS); other site 557722001604 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557722001605 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 557722001606 ligand binding site [chemical binding]; other site 557722001607 flexible hinge region; other site 557722001608 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 557722001609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722001610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722001611 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 557722001612 dimerization interface [polypeptide binding]; other site 557722001613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 557722001614 MOSC domain; Region: MOSC; pfam03473 557722001615 3-alpha domain; Region: 3-alpha; pfam03475 557722001616 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 557722001617 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 557722001618 inhibitor-cofactor binding pocket; inhibition site 557722001619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722001620 catalytic residue [active] 557722001621 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557722001622 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557722001623 catalytic triad [active] 557722001624 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557722001625 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 557722001626 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557722001627 putative active site [active] 557722001628 heme pocket [chemical binding]; other site 557722001629 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 557722001630 putative active site [active] 557722001631 heme pocket [chemical binding]; other site 557722001632 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722001633 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 557722001634 DNA binding residues [nucleotide binding] 557722001635 dimerization interface [polypeptide binding]; other site 557722001636 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722001637 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722001638 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 557722001639 non-specific DNA binding site [nucleotide binding]; other site 557722001640 salt bridge; other site 557722001641 sequence-specific DNA binding site [nucleotide binding]; other site 557722001642 Cupin domain; Region: Cupin_2; pfam07883 557722001643 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 557722001644 Repair protein; Region: Repair_PSII; pfam04536 557722001645 LemA family; Region: LemA; pfam04011 557722001646 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 557722001647 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 557722001648 EamA-like transporter family; Region: EamA; pfam00892 557722001649 Predicted membrane protein [Function unknown]; Region: COG3686 557722001650 Cytochrome c556 [Energy production and conversion]; Region: COG3909 557722001651 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 557722001652 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 557722001653 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557722001654 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 557722001655 active site 557722001656 metal binding site [ion binding]; metal-binding site 557722001657 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 557722001658 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 557722001659 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 557722001660 FAD binding pocket [chemical binding]; other site 557722001661 FAD binding motif [chemical binding]; other site 557722001662 phosphate binding motif [ion binding]; other site 557722001663 beta-alpha-beta structure motif; other site 557722001664 NAD binding pocket [chemical binding]; other site 557722001665 S-adenosylmethionine synthetase; Validated; Region: PRK05250 557722001666 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 557722001667 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 557722001668 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 557722001669 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 557722001670 putative DNA binding site [nucleotide binding]; other site 557722001671 dimerization interface [polypeptide binding]; other site 557722001672 putative Zn2+ binding site [ion binding]; other site 557722001673 Methyltransferase domain; Region: Methyltransf_23; pfam13489 557722001674 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722001675 S-adenosylmethionine binding site [chemical binding]; other site 557722001676 transketolase; Reviewed; Region: PRK12753 557722001677 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 557722001678 TPP-binding site [chemical binding]; other site 557722001679 dimer interface [polypeptide binding]; other site 557722001680 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 557722001681 PYR/PP interface [polypeptide binding]; other site 557722001682 dimer interface [polypeptide binding]; other site 557722001683 TPP binding site [chemical binding]; other site 557722001684 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557722001685 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 557722001686 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 557722001687 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 557722001688 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 557722001689 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 557722001690 Phosphoglycerate kinase; Region: PGK; pfam00162 557722001691 substrate binding site [chemical binding]; other site 557722001692 hinge regions; other site 557722001693 ADP binding site [chemical binding]; other site 557722001694 catalytic site [active] 557722001695 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 557722001696 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 557722001697 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 557722001698 intersubunit interface [polypeptide binding]; other site 557722001699 active site 557722001700 zinc binding site [ion binding]; other site 557722001701 Na+ binding site [ion binding]; other site 557722001702 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 557722001703 SnoaL-like domain; Region: SnoaL_3; pfam13474 557722001704 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722001705 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722001706 S-adenosylmethionine binding site [chemical binding]; other site 557722001707 Predicted flavoproteins [General function prediction only]; Region: COG2081 557722001708 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 557722001709 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557722001710 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 557722001711 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 557722001712 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 557722001713 motif II; other site 557722001714 Protein of unknown function (DUF805); Region: DUF805; pfam05656 557722001715 Cupin; Region: Cupin_6; pfam12852 557722001716 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722001717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722001718 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 557722001719 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 557722001720 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 557722001721 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 557722001722 Peptidase M60-like family; Region: M60-like; pfam13402 557722001723 Nuclease-related domain; Region: NERD; pfam08378 557722001724 Fic family protein [Function unknown]; Region: COG3177 557722001725 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 557722001726 Fic/DOC family; Region: Fic; pfam02661 557722001727 CRISPR/Cas system-associated transcriptional regulator CasRa; Region: CasRa_I-A; cd09655 557722001728 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722001729 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 557722001730 substrate binding pocket [chemical binding]; other site 557722001731 membrane-bound complex binding site; other site 557722001732 hinge residues; other site 557722001733 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557722001734 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 557722001735 putative active site [active] 557722001736 heme pocket [chemical binding]; other site 557722001737 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 557722001738 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 557722001739 putative active site [active] 557722001740 heme pocket [chemical binding]; other site 557722001741 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 557722001742 putative active site [active] 557722001743 heme pocket [chemical binding]; other site 557722001744 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 557722001745 putative active site [active] 557722001746 heme pocket [chemical binding]; other site 557722001747 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722001748 metal binding site [ion binding]; metal-binding site 557722001749 active site 557722001750 I-site; other site 557722001751 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 557722001752 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 557722001753 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 557722001754 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557722001755 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 557722001756 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722001757 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557722001758 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 557722001759 DNA binding residues [nucleotide binding] 557722001760 DNA primase, catalytic core; Region: dnaG; TIGR01391 557722001761 CHC2 zinc finger; Region: zf-CHC2; pfam01807 557722001762 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 557722001763 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 557722001764 active site 557722001765 metal binding site [ion binding]; metal-binding site 557722001766 interdomain interaction site; other site 557722001767 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 557722001768 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 557722001769 Yqey-like protein; Region: YqeY; pfam09424 557722001770 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 557722001771 UGMP family protein; Validated; Region: PRK09604 557722001772 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557722001773 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 557722001774 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 557722001775 homooctamer interface [polypeptide binding]; other site 557722001776 active site 557722001777 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 557722001778 catalytic center binding site [active] 557722001779 ATP binding site [chemical binding]; other site 557722001780 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 557722001781 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557722001782 active site 557722001783 NTP binding site [chemical binding]; other site 557722001784 metal binding triad [ion binding]; metal-binding site 557722001785 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557722001786 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722001787 Zn2+ binding site [ion binding]; other site 557722001788 Mg2+ binding site [ion binding]; other site 557722001789 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 557722001790 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 557722001791 SpoVR family protein; Provisional; Region: PRK11767 557722001792 hypothetical protein; Provisional; Region: PRK05325 557722001793 PrkA family serine protein kinase; Provisional; Region: PRK15455 557722001794 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 557722001795 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 557722001796 active site residue [active] 557722001797 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 557722001798 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 557722001799 active site 557722001800 metal binding site [ion binding]; metal-binding site 557722001801 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 557722001802 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 557722001803 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 557722001804 S-adenosylmethionine binding site [chemical binding]; other site 557722001805 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 557722001806 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 557722001807 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 557722001808 SurA N-terminal domain; Region: SurA_N; pfam09312 557722001809 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557722001810 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557722001811 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 557722001812 OstA-like protein; Region: OstA; cl00844 557722001813 Organic solvent tolerance protein; Region: OstA_C; pfam04453 557722001814 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 557722001815 Phosphotransferase enzyme family; Region: APH; pfam01636 557722001816 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 557722001817 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 557722001818 Substrate binding site; other site 557722001819 metal-binding site 557722001820 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 557722001821 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 557722001822 putative metal binding site [ion binding]; other site 557722001823 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 557722001824 HSP70 interaction site [polypeptide binding]; other site 557722001825 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 557722001826 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 557722001827 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722001828 substrate binding pocket [chemical binding]; other site 557722001829 membrane-bound complex binding site; other site 557722001830 hinge residues; other site 557722001831 PAS domain S-box; Region: sensory_box; TIGR00229 557722001832 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 557722001833 putative active site [active] 557722001834 heme pocket [chemical binding]; other site 557722001835 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 557722001836 PAS fold; Region: PAS_3; pfam08447 557722001837 putative active site [active] 557722001838 heme pocket [chemical binding]; other site 557722001839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 557722001840 Histidine kinase; Region: HisKA_3; pfam07730 557722001841 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722001842 ATP binding site [chemical binding]; other site 557722001843 Mg2+ binding site [ion binding]; other site 557722001844 G-X-G motif; other site 557722001845 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722001846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722001847 active site 557722001848 phosphorylation site [posttranslational modification] 557722001849 intermolecular recognition site; other site 557722001850 dimerization interface [polypeptide binding]; other site 557722001851 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 557722001852 DNA binding residues [nucleotide binding] 557722001853 dimerization interface [polypeptide binding]; other site 557722001854 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557722001855 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722001856 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557722001857 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 557722001858 Walker A/P-loop; other site 557722001859 ATP binding site [chemical binding]; other site 557722001860 Q-loop/lid; other site 557722001861 ABC transporter signature motif; other site 557722001862 Walker B; other site 557722001863 D-loop; other site 557722001864 H-loop/switch region; other site 557722001865 Poxvirus L5 protein family; Region: Pox_L5; cl17406 557722001866 TOBE domain; Region: TOBE_2; pfam08402 557722001867 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557722001868 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722001869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722001870 dimer interface [polypeptide binding]; other site 557722001871 conserved gate region; other site 557722001872 putative PBP binding loops; other site 557722001873 ABC-ATPase subunit interface; other site 557722001874 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557722001875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722001876 dimer interface [polypeptide binding]; other site 557722001877 conserved gate region; other site 557722001878 putative PBP binding loops; other site 557722001879 ABC-ATPase subunit interface; other site 557722001880 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 557722001881 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 557722001882 substrate binding site [chemical binding]; other site 557722001883 hexamer interface [polypeptide binding]; other site 557722001884 metal binding site [ion binding]; metal-binding site 557722001885 phosphoglycolate phosphatase; Provisional; Region: PRK13223 557722001886 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 557722001887 motif II; other site 557722001888 anthranilate synthase component I; Provisional; Region: PRK13565 557722001889 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 557722001890 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 557722001891 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 557722001892 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 557722001893 non-specific DNA binding site [nucleotide binding]; other site 557722001894 Predicted transcriptional regulator [Transcription]; Region: COG2932 557722001895 salt bridge; other site 557722001896 sequence-specific DNA binding site [nucleotide binding]; other site 557722001897 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 557722001898 Catalytic site [active] 557722001899 LES prophage 1 557722001900 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 557722001901 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 557722001902 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 557722001903 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 557722001904 Baseplate J-like protein; Region: Baseplate_J; cl01294 557722001905 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 557722001906 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 557722001907 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 557722001908 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 557722001909 phage contractile tail tube protein, P2 family; Region: tail_tube; TIGR01611 557722001910 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 557722001911 Mu-like prophage protein [General function prediction only]; Region: COG3941 557722001912 Phage protein U [General function prediction only]; Region: COG3499 557722001913 P2-like prophage tail protein X [General function prediction only]; Region: COG5004 557722001914 Phage protein D [General function prediction only]; Region: COG3500 557722001915 Predicted chitinase [General function prediction only]; Region: COG3179 557722001916 catalytic residue [active] 557722001917 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 557722001918 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557722001919 glutamine binding [chemical binding]; other site 557722001920 catalytic triad [active] 557722001921 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 557722001922 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557722001923 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557722001924 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 557722001925 active site 557722001926 ribulose/triose binding site [chemical binding]; other site 557722001927 phosphate binding site [ion binding]; other site 557722001928 substrate (anthranilate) binding pocket [chemical binding]; other site 557722001929 product (indole) binding pocket [chemical binding]; other site 557722001930 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 557722001931 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 557722001932 ligand binding site [chemical binding]; other site 557722001933 flexible hinge region; other site 557722001934 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 557722001935 putative switch regulator; other site 557722001936 non-specific DNA interactions [nucleotide binding]; other site 557722001937 DNA binding site [nucleotide binding] 557722001938 sequence specific DNA binding site [nucleotide binding]; other site 557722001939 putative cAMP binding site [chemical binding]; other site 557722001940 OsmC-like protein; Region: OsmC; cl00767 557722001941 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 557722001942 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 557722001943 diiron binding motif [ion binding]; other site 557722001944 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 557722001945 nucleotide binding site/active site [active] 557722001946 HIT family signature motif; other site 557722001947 catalytic residue [active] 557722001948 Ycf46; Provisional; Region: ycf46; CHL00195 557722001949 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722001950 Walker A motif; other site 557722001951 ATP binding site [chemical binding]; other site 557722001952 Walker B motif; other site 557722001953 arginine finger; other site 557722001954 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557722001955 classical (c) SDRs; Region: SDR_c; cd05233 557722001956 NAD(P) binding site [chemical binding]; other site 557722001957 active site 557722001958 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 557722001959 Predicted membrane protein [Function unknown]; Region: COG3152 557722001960 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 557722001961 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 557722001962 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 557722001963 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 557722001964 FMN binding site [chemical binding]; other site 557722001965 substrate binding site [chemical binding]; other site 557722001966 putative catalytic residue [active] 557722001967 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 557722001968 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 557722001969 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557722001970 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 557722001971 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 557722001972 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 557722001973 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 557722001974 putative peptidase; Provisional; Region: PRK11649 557722001975 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 557722001976 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722001977 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 557722001978 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 557722001979 active site 557722001980 HIGH motif; other site 557722001981 dimer interface [polypeptide binding]; other site 557722001982 KMSKS motif; other site 557722001983 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 557722001984 Biotin operon repressor [Transcription]; Region: BirA; COG1654 557722001985 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 557722001986 pantothenate kinase; Reviewed; Region: PRK13322 557722001987 Sporulation related domain; Region: SPOR; pfam05036 557722001988 Sporulation related domain; Region: SPOR; pfam05036 557722001989 Sporulation related domain; Region: SPOR; cl10051 557722001990 elongation factor Tu; Reviewed; Region: PRK00049 557722001991 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557722001992 G1 box; other site 557722001993 GEF interaction site [polypeptide binding]; other site 557722001994 GTP/Mg2+ binding site [chemical binding]; other site 557722001995 Switch I region; other site 557722001996 G2 box; other site 557722001997 G3 box; other site 557722001998 Switch II region; other site 557722001999 G4 box; other site 557722002000 G5 box; other site 557722002001 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 557722002002 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 557722002003 Antibiotic Binding Site [chemical binding]; other site 557722002004 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 557722002005 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 557722002006 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 557722002007 putative homodimer interface [polypeptide binding]; other site 557722002008 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 557722002009 heterodimer interface [polypeptide binding]; other site 557722002010 homodimer interface [polypeptide binding]; other site 557722002011 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 557722002012 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 557722002013 23S rRNA interface [nucleotide binding]; other site 557722002014 L7/L12 interface [polypeptide binding]; other site 557722002015 putative thiostrepton binding site; other site 557722002016 L25 interface [polypeptide binding]; other site 557722002017 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 557722002018 mRNA/rRNA interface [nucleotide binding]; other site 557722002019 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 557722002020 23S rRNA interface [nucleotide binding]; other site 557722002021 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 557722002022 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 557722002023 core dimer interface [polypeptide binding]; other site 557722002024 peripheral dimer interface [polypeptide binding]; other site 557722002025 L10 interface [polypeptide binding]; other site 557722002026 L11 interface [polypeptide binding]; other site 557722002027 putative EF-Tu interaction site [polypeptide binding]; other site 557722002028 putative EF-G interaction site [polypeptide binding]; other site 557722002029 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 557722002030 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 557722002031 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 557722002032 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 557722002033 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 557722002034 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 557722002035 RPB3 interaction site [polypeptide binding]; other site 557722002036 RPB1 interaction site [polypeptide binding]; other site 557722002037 RPB11 interaction site [polypeptide binding]; other site 557722002038 RPB10 interaction site [polypeptide binding]; other site 557722002039 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 557722002040 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 557722002041 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 557722002042 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 557722002043 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 557722002044 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 557722002045 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 557722002046 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 557722002047 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 557722002048 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 557722002049 DNA binding site [nucleotide binding] 557722002050 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 557722002051 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 557722002052 S17 interaction site [polypeptide binding]; other site 557722002053 S8 interaction site; other site 557722002054 16S rRNA interaction site [nucleotide binding]; other site 557722002055 streptomycin interaction site [chemical binding]; other site 557722002056 23S rRNA interaction site [nucleotide binding]; other site 557722002057 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 557722002058 30S ribosomal protein S7; Validated; Region: PRK05302 557722002059 elongation factor G; Reviewed; Region: PRK00007 557722002060 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 557722002061 G1 box; other site 557722002062 putative GEF interaction site [polypeptide binding]; other site 557722002063 GTP/Mg2+ binding site [chemical binding]; other site 557722002064 Switch I region; other site 557722002065 G2 box; other site 557722002066 G3 box; other site 557722002067 Switch II region; other site 557722002068 G4 box; other site 557722002069 G5 box; other site 557722002070 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 557722002071 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 557722002072 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 557722002073 elongation factor Tu; Reviewed; Region: PRK00049 557722002074 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557722002075 G1 box; other site 557722002076 GEF interaction site [polypeptide binding]; other site 557722002077 GTP/Mg2+ binding site [chemical binding]; other site 557722002078 Switch I region; other site 557722002079 G2 box; other site 557722002080 G3 box; other site 557722002081 Switch II region; other site 557722002082 G4 box; other site 557722002083 G5 box; other site 557722002084 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 557722002085 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 557722002086 Antibiotic Binding Site [chemical binding]; other site 557722002087 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 557722002088 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 557722002089 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 557722002090 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 557722002091 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 557722002092 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 557722002093 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 557722002094 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 557722002095 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 557722002096 protein-rRNA interface [nucleotide binding]; other site 557722002097 putative translocon binding site; other site 557722002098 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 557722002099 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 557722002100 G-X-X-G motif; other site 557722002101 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 557722002102 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 557722002103 23S rRNA interface [nucleotide binding]; other site 557722002104 5S rRNA interface [nucleotide binding]; other site 557722002105 putative antibiotic binding site [chemical binding]; other site 557722002106 L25 interface [polypeptide binding]; other site 557722002107 L27 interface [polypeptide binding]; other site 557722002108 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 557722002109 23S rRNA interface [nucleotide binding]; other site 557722002110 putative translocon interaction site; other site 557722002111 signal recognition particle (SRP54) interaction site; other site 557722002112 L23 interface [polypeptide binding]; other site 557722002113 trigger factor interaction site; other site 557722002114 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 557722002115 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 557722002116 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 557722002117 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 557722002118 RNA binding site [nucleotide binding]; other site 557722002119 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 557722002120 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 557722002121 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 557722002122 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 557722002123 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 557722002124 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 557722002125 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557722002126 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557722002127 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 557722002128 5S rRNA interface [nucleotide binding]; other site 557722002129 23S rRNA interface [nucleotide binding]; other site 557722002130 L5 interface [polypeptide binding]; other site 557722002131 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 557722002132 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 557722002133 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 557722002134 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 557722002135 23S rRNA binding site [nucleotide binding]; other site 557722002136 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 557722002137 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 557722002138 SecY translocase; Region: SecY; pfam00344 557722002139 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 557722002140 30S ribosomal protein S13; Region: bact_S13; TIGR03631 557722002141 30S ribosomal protein S11; Validated; Region: PRK05309 557722002142 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 557722002143 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 557722002144 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 557722002145 RNA binding surface [nucleotide binding]; other site 557722002146 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 557722002147 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 557722002148 alphaNTD homodimer interface [polypeptide binding]; other site 557722002149 alphaNTD - beta interaction site [polypeptide binding]; other site 557722002150 alphaNTD - beta' interaction site [polypeptide binding]; other site 557722002151 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 557722002152 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 557722002153 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 557722002154 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 557722002155 tetramer interface [polypeptide binding]; other site 557722002156 heme binding pocket [chemical binding]; other site 557722002157 NADPH binding site [chemical binding]; other site 557722002158 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 557722002159 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 557722002160 heme binding site [chemical binding]; other site 557722002161 ferroxidase pore; other site 557722002162 ferroxidase diiron center [ion binding]; other site 557722002163 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 557722002164 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557722002165 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557722002166 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 557722002167 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722002168 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722002169 putative substrate translocation pore; other site 557722002170 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 557722002171 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 557722002172 dimer interface [polypeptide binding]; other site 557722002173 ssDNA binding site [nucleotide binding]; other site 557722002174 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557722002175 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 557722002176 isochorismate synthases; Region: isochor_syn; TIGR00543 557722002177 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 557722002178 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 557722002179 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 557722002180 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 557722002181 acyl-activating enzyme (AAE) consensus motif; other site 557722002182 active site 557722002183 AMP binding site [chemical binding]; other site 557722002184 substrate binding site [chemical binding]; other site 557722002185 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722002186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722002187 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557722002188 Condensation domain; Region: Condensation; pfam00668 557722002189 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722002190 Nonribosomal peptide synthase; Region: NRPS; pfam08415 557722002191 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 557722002192 acyl-activating enzyme (AAE) consensus motif; other site 557722002193 AMP binding site [chemical binding]; other site 557722002194 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722002195 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722002196 Condensation domain; Region: Condensation; pfam00668 557722002197 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722002198 Nonribosomal peptide synthase; Region: NRPS; pfam08415 557722002199 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 557722002200 acyl-activating enzyme (AAE) consensus motif; other site 557722002201 AMP binding site [chemical binding]; other site 557722002202 Methyltransferase domain; Region: Methyltransf_12; pfam08242 557722002203 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722002204 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722002205 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 557722002206 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557722002207 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557722002208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722002209 Walker A/P-loop; other site 557722002210 ATP binding site [chemical binding]; other site 557722002211 Q-loop/lid; other site 557722002212 ABC transporter signature motif; other site 557722002213 Walker B; other site 557722002214 D-loop; other site 557722002215 H-loop/switch region; other site 557722002216 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 557722002217 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 557722002218 Walker A/P-loop; other site 557722002219 ATP binding site [chemical binding]; other site 557722002220 Q-loop/lid; other site 557722002221 ABC transporter signature motif; other site 557722002222 Walker B; other site 557722002223 D-loop; other site 557722002224 H-loop/switch region; other site 557722002225 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 557722002226 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 557722002227 N-terminal plug; other site 557722002228 ligand-binding site [chemical binding]; other site 557722002229 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557722002230 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 557722002231 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 557722002232 hypothetical protein; Provisional; Region: PRK07538 557722002233 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557722002234 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 557722002235 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 557722002236 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 557722002237 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 557722002238 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 557722002239 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 557722002240 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557722002241 Glutamine amidotransferase class-I; Region: GATase; pfam00117 557722002242 glutamine binding [chemical binding]; other site 557722002243 catalytic triad [active] 557722002244 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 557722002245 hydrophobic substrate binding pocket; other site 557722002246 Isochorismatase family; Region: Isochorismatase; pfam00857 557722002247 active site 557722002248 conserved cis-peptide bond; other site 557722002249 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 557722002250 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 557722002251 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 557722002252 O-methyltransferase; Region: Methyltransf_2; pfam00891 557722002253 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557722002254 multidrug efflux protein; Reviewed; Region: PRK09579 557722002255 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722002256 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722002257 Predicted membrane protein [Function unknown]; Region: COG2259 557722002258 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 557722002259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722002260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722002261 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 557722002262 putative dimerization interface [polypeptide binding]; other site 557722002263 Nitronate monooxygenase; Region: NMO; pfam03060 557722002264 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 557722002265 FMN binding site [chemical binding]; other site 557722002266 substrate binding site [chemical binding]; other site 557722002267 putative catalytic residue [active] 557722002268 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 557722002269 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 557722002270 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722002271 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557722002272 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557722002273 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557722002274 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722002275 active site 557722002276 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557722002277 acyl-CoA synthetase; Validated; Region: PRK08162 557722002278 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 557722002279 acyl-activating enzyme (AAE) consensus motif; other site 557722002280 putative active site [active] 557722002281 AMP binding site [chemical binding]; other site 557722002282 putative CoA binding site [chemical binding]; other site 557722002283 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557722002284 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 557722002285 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557722002286 putative active site [active] 557722002287 heme pocket [chemical binding]; other site 557722002288 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 557722002289 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 557722002290 putative active site [active] 557722002291 heme pocket [chemical binding]; other site 557722002292 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 557722002293 dimer interface [polypeptide binding]; other site 557722002294 phosphorylation site [posttranslational modification] 557722002295 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722002296 ATP binding site [chemical binding]; other site 557722002297 Mg2+ binding site [ion binding]; other site 557722002298 G-X-G motif; other site 557722002299 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 557722002300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722002301 active site 557722002302 phosphorylation site [posttranslational modification] 557722002303 intermolecular recognition site; other site 557722002304 dimerization interface [polypeptide binding]; other site 557722002305 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 557722002306 DNA binding residues [nucleotide binding] 557722002307 dimerization interface [polypeptide binding]; other site 557722002308 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722002309 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 557722002310 substrate binding pocket [chemical binding]; other site 557722002311 membrane-bound complex binding site; other site 557722002312 hinge residues; other site 557722002313 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722002314 dimer interface [polypeptide binding]; other site 557722002315 conserved gate region; other site 557722002316 putative PBP binding loops; other site 557722002317 ABC-ATPase subunit interface; other site 557722002318 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722002319 dimer interface [polypeptide binding]; other site 557722002320 conserved gate region; other site 557722002321 putative PBP binding loops; other site 557722002322 ABC-ATPase subunit interface; other site 557722002323 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557722002324 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557722002325 Walker A/P-loop; other site 557722002326 ATP binding site [chemical binding]; other site 557722002327 Q-loop/lid; other site 557722002328 ABC transporter signature motif; other site 557722002329 Walker B; other site 557722002330 D-loop; other site 557722002331 H-loop/switch region; other site 557722002332 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 557722002333 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 557722002334 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 557722002335 putative monooxygenase; Reviewed; Region: PRK07045 557722002336 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557722002337 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 557722002338 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557722002339 NAD(P) binding site [chemical binding]; other site 557722002340 catalytic residues [active] 557722002341 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557722002342 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557722002343 inhibitor site; inhibition site 557722002344 active site 557722002345 dimer interface [polypeptide binding]; other site 557722002346 catalytic residue [active] 557722002347 benzoate transport; Region: 2A0115; TIGR00895 557722002348 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722002349 putative substrate translocation pore; other site 557722002350 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722002351 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722002352 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 557722002353 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722002354 DNA-binding site [nucleotide binding]; DNA binding site 557722002355 FCD domain; Region: FCD; pfam07729 557722002356 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557722002357 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 557722002358 conserved cys residue [active] 557722002359 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722002360 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722002361 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 557722002362 active site 557722002363 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 557722002364 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 557722002365 B3/4 domain; Region: B3_4; pfam03483 557722002366 acetolactate synthase; Reviewed; Region: PRK08322 557722002367 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557722002368 PYR/PP interface [polypeptide binding]; other site 557722002369 dimer interface [polypeptide binding]; other site 557722002370 TPP binding site [chemical binding]; other site 557722002371 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722002372 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 557722002373 TPP-binding site [chemical binding]; other site 557722002374 dimer interface [polypeptide binding]; other site 557722002375 outer membrane porin, OprD family; Region: OprD; pfam03573 557722002376 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 557722002377 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722002378 S-adenosylmethionine binding site [chemical binding]; other site 557722002379 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557722002380 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 557722002381 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 557722002382 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722002383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722002384 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 557722002385 putative effector binding pocket; other site 557722002386 putative dimerization interface [polypeptide binding]; other site 557722002387 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 557722002388 homotrimer interaction site [polypeptide binding]; other site 557722002389 putative active site [active] 557722002390 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 557722002391 putative catalytic site [active] 557722002392 putative phosphate binding site [ion binding]; other site 557722002393 active site 557722002394 metal binding site A [ion binding]; metal-binding site 557722002395 DNA binding site [nucleotide binding] 557722002396 putative AP binding site [nucleotide binding]; other site 557722002397 putative metal binding site B [ion binding]; other site 557722002398 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 557722002399 intracellular protease, PfpI family; Region: PfpI; TIGR01382 557722002400 proposed catalytic triad [active] 557722002401 conserved cys residue [active] 557722002402 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 557722002403 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 557722002404 Predicted transcriptional regulator [Transcription]; Region: COG1959 557722002405 Transcriptional regulator; Region: Rrf2; pfam02082 557722002406 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 557722002407 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 557722002408 N-terminal plug; other site 557722002409 ligand-binding site [chemical binding]; other site 557722002410 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 557722002411 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722002412 active site 557722002413 catalytic tetrad [active] 557722002414 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557722002415 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722002416 Coenzyme A binding pocket [chemical binding]; other site 557722002417 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 557722002418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722002419 DNA-binding site [nucleotide binding]; DNA binding site 557722002420 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 557722002421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722002422 homodimer interface [polypeptide binding]; other site 557722002423 catalytic residue [active] 557722002424 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 557722002425 putative active site pocket [active] 557722002426 dimerization interface [polypeptide binding]; other site 557722002427 putative catalytic residue [active] 557722002428 amidase; Validated; Region: PRK06565 557722002429 Amidase; Region: Amidase; cl11426 557722002430 short chain dehydrogenase; Provisional; Region: PRK07577 557722002431 classical (c) SDRs; Region: SDR_c; cd05233 557722002432 NAD(P) binding site [chemical binding]; other site 557722002433 active site 557722002434 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 557722002435 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 557722002436 ABC-ATPase subunit interface; other site 557722002437 dimer interface [polypeptide binding]; other site 557722002438 putative PBP binding regions; other site 557722002439 FecCD transport family; Region: FecCD; pfam01032 557722002440 ABC-ATPase subunit interface; other site 557722002441 dimer interface [polypeptide binding]; other site 557722002442 putative PBP binding regions; other site 557722002443 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 557722002444 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 557722002445 siderophore binding site; other site 557722002446 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 557722002447 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557722002448 Walker A/P-loop; other site 557722002449 ATP binding site [chemical binding]; other site 557722002450 Q-loop/lid; other site 557722002451 ABC transporter signature motif; other site 557722002452 Walker B; other site 557722002453 D-loop; other site 557722002454 H-loop/switch region; other site 557722002455 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 557722002456 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557722002457 Bacterial transcriptional regulator; Region: IclR; pfam01614 557722002458 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557722002459 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 557722002460 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 557722002461 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 557722002462 active site 557722002463 non-prolyl cis peptide bond; other site 557722002464 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 557722002465 Bacterial SH3 domain; Region: SH3_3; pfam08239 557722002466 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557722002467 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 557722002468 putative NAD(P) binding site [chemical binding]; other site 557722002469 catalytic Zn binding site [ion binding]; other site 557722002470 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 557722002471 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 557722002472 E3 interaction surface; other site 557722002473 lipoyl attachment site [posttranslational modification]; other site 557722002474 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 557722002475 nucleophilic elbow; other site 557722002476 catalytic triad; other site 557722002477 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 557722002478 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 557722002479 alpha subunit interface [polypeptide binding]; other site 557722002480 TPP binding site [chemical binding]; other site 557722002481 heterodimer interface [polypeptide binding]; other site 557722002482 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557722002483 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 557722002484 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 557722002485 tetramer interface [polypeptide binding]; other site 557722002486 TPP-binding site [chemical binding]; other site 557722002487 heterodimer interface [polypeptide binding]; other site 557722002488 phosphorylation loop region [posttranslational modification] 557722002489 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 557722002490 ATP-NAD kinase; Region: NAD_kinase; pfam01513 557722002491 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557722002492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722002493 NAD(P) binding site [chemical binding]; other site 557722002494 active site 557722002495 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 557722002496 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722002497 Walker A motif; other site 557722002498 ATP binding site [chemical binding]; other site 557722002499 Walker B motif; other site 557722002500 arginine finger; other site 557722002501 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722002502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722002503 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 557722002504 putative effector binding pocket; other site 557722002505 dimerization interface [polypeptide binding]; other site 557722002506 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557722002507 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 557722002508 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 557722002509 putative active site [active] 557722002510 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557722002511 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 557722002512 Walker A/P-loop; other site 557722002513 ATP binding site [chemical binding]; other site 557722002514 Q-loop/lid; other site 557722002515 ABC transporter signature motif; other site 557722002516 Walker B; other site 557722002517 D-loop; other site 557722002518 H-loop/switch region; other site 557722002519 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557722002520 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722002521 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722002522 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557722002523 FAD binding domain; Region: FAD_binding_4; pfam01565 557722002524 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 557722002525 LES prophage 2 557722002526 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 557722002527 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 557722002528 active site 557722002529 DNA binding site [nucleotide binding] 557722002530 Int/Topo IB signature motif; other site 557722002531 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 557722002532 DNA binding residues [nucleotide binding] 557722002533 dimerization interface [polypeptide binding]; other site 557722002534 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557722002535 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 557722002536 salt bridge; other site 557722002537 non-specific DNA binding site [nucleotide binding]; other site 557722002538 sequence-specific DNA binding site [nucleotide binding]; other site 557722002539 Predicted transcriptional regulator [Transcription]; Region: COG2932 557722002540 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 557722002541 Catalytic site [active] 557722002542 HNH endonuclease; Region: HNH_3; pfam13392 557722002543 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 557722002544 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722002545 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557722002546 Walker A motif; other site 557722002547 ATP binding site [chemical binding]; other site 557722002548 Walker B motif; other site 557722002549 arginine finger; other site 557722002550 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 557722002551 replicative DNA helicase; Region: DnaB; TIGR00665 557722002552 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 557722002553 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 557722002554 Walker A motif; other site 557722002555 Walker A motif; other site 557722002556 ATP binding site [chemical binding]; other site 557722002557 Walker B motif; other site 557722002558 DNA binding loops [nucleotide binding] 557722002559 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 557722002560 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557722002561 active site 557722002562 metal binding site [ion binding]; metal-binding site 557722002563 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 557722002564 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557722002565 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 557722002566 salt bridge; other site 557722002567 non-specific DNA binding site [nucleotide binding]; other site 557722002568 sequence-specific DNA binding site [nucleotide binding]; other site 557722002569 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 557722002570 Predicted chitinase [General function prediction only]; Region: COG3179 557722002571 catalytic residue [active] 557722002572 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 557722002573 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 557722002574 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 557722002575 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 557722002576 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 557722002577 active site residues [active] 557722002578 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 557722002579 Duplication 1a 557722002580 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 557722002581 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 557722002582 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 557722002583 Phage-related minor tail protein [Function unknown]; Region: COG5281 557722002584 tape measure domain; Region: tape_meas_nterm; TIGR02675 557722002585 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 557722002586 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 557722002587 active site 557722002588 HIGH motif; other site 557722002589 dimer interface [polypeptide binding]; other site 557722002590 KMSKS motif; other site 557722002591 outer membrane porin, OprD family; Region: OprD; pfam03573 557722002592 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 557722002593 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722002594 putative substrate translocation pore; other site 557722002595 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 557722002596 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557722002597 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 557722002598 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557722002599 Low-spin heme binding site [chemical binding]; other site 557722002600 Putative water exit pathway; other site 557722002601 Binuclear center (active site) [active] 557722002602 Putative proton exit pathway; other site 557722002603 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 557722002604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722002605 DNA-binding site [nucleotide binding]; DNA binding site 557722002606 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 557722002607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722002608 homodimer interface [polypeptide binding]; other site 557722002609 catalytic residue [active] 557722002610 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 557722002611 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 557722002612 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 557722002613 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557722002614 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557722002615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 557722002616 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 557722002617 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 557722002618 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 557722002619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722002620 putative substrate translocation pore; other site 557722002621 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 557722002622 putative substrate binding pocket [chemical binding]; other site 557722002623 trimer interface [polypeptide binding]; other site 557722002624 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 557722002625 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 557722002626 putative active site [active] 557722002627 putative metal binding site [ion binding]; other site 557722002628 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 557722002629 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 557722002630 NAD binding site [chemical binding]; other site 557722002631 catalytic residues [active] 557722002632 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 557722002633 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 557722002634 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 557722002635 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557722002636 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 557722002637 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722002638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722002639 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 557722002640 Phosphotransferase enzyme family; Region: APH; pfam01636 557722002641 active site 557722002642 ATP binding site [chemical binding]; other site 557722002643 antibiotic binding site [chemical binding]; other site 557722002644 Predicted periplasmic protein [Function unknown]; Region: COG3904 557722002645 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 557722002646 GAF domain; Region: GAF; pfam01590 557722002647 Phytochrome region; Region: PHY; pfam00360 557722002648 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 557722002649 dimer interface [polypeptide binding]; other site 557722002650 phosphorylation site [posttranslational modification] 557722002651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722002652 ATP binding site [chemical binding]; other site 557722002653 Mg2+ binding site [ion binding]; other site 557722002654 G-X-G motif; other site 557722002655 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 557722002656 heme binding pocket [chemical binding]; other site 557722002657 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 557722002658 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 557722002659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722002660 Coenzyme A binding pocket [chemical binding]; other site 557722002661 putative arabinose transporter; Provisional; Region: PRK03545 557722002662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722002663 putative substrate translocation pore; other site 557722002664 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3614 557722002665 PAS domain S-box; Region: sensory_box; TIGR00229 557722002666 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 557722002667 putative active site [active] 557722002668 heme pocket [chemical binding]; other site 557722002669 PAS domain; Region: PAS_9; pfam13426 557722002670 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 557722002671 putative active site [active] 557722002672 heme pocket [chemical binding]; other site 557722002673 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 557722002674 PAS fold; Region: PAS_3; pfam08447 557722002675 putative active site [active] 557722002676 heme pocket [chemical binding]; other site 557722002677 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 557722002678 dimer interface [polypeptide binding]; other site 557722002679 phosphorylation site [posttranslational modification] 557722002680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722002681 ATP binding site [chemical binding]; other site 557722002682 Mg2+ binding site [ion binding]; other site 557722002683 G-X-G motif; other site 557722002684 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722002685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722002686 active site 557722002687 phosphorylation site [posttranslational modification] 557722002688 intermolecular recognition site; other site 557722002689 dimerization interface [polypeptide binding]; other site 557722002690 Response regulator receiver domain; Region: Response_reg; pfam00072 557722002691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722002692 active site 557722002693 phosphorylation site [posttranslational modification] 557722002694 intermolecular recognition site; other site 557722002695 dimerization interface [polypeptide binding]; other site 557722002696 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 557722002697 putative binding surface; other site 557722002698 active site 557722002699 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557722002700 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 557722002701 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722002702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722002703 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 557722002704 putative dimerization interface [polypeptide binding]; other site 557722002705 putative substrate binding pocket [chemical binding]; other site 557722002706 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 557722002707 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 557722002708 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722002709 Zn2+ binding site [ion binding]; other site 557722002710 Mg2+ binding site [ion binding]; other site 557722002711 SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate...; Region: SPARC_EC; cd00252 557722002712 EF-hand Ca2+ binding loops [ion binding]; other site 557722002713 FS-domain interface [polypeptide binding]; other site 557722002714 Protein of unknown function (DUF692); Region: DUF692; pfam05114 557722002715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 557722002716 DoxX; Region: DoxX; pfam07681 557722002717 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 557722002718 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722002719 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 557722002720 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722002721 ATP binding site [chemical binding]; other site 557722002722 Mg2+ binding site [ion binding]; other site 557722002723 G-X-G motif; other site 557722002724 osmolarity response regulator; Provisional; Region: ompR; PRK09468 557722002725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722002726 active site 557722002727 phosphorylation site [posttranslational modification] 557722002728 intermolecular recognition site; other site 557722002729 dimerization interface [polypeptide binding]; other site 557722002730 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 557722002731 DNA binding site [nucleotide binding] 557722002732 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 557722002733 choline dehydrogenase; Validated; Region: PRK02106 557722002734 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557722002735 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 557722002736 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557722002737 classical (c) SDRs; Region: SDR_c; cd05233 557722002738 NAD(P) binding site [chemical binding]; other site 557722002739 active site 557722002740 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557722002741 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 557722002742 putative NAD(P) binding site [chemical binding]; other site 557722002743 catalytic Zn binding site [ion binding]; other site 557722002744 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722002745 D-galactonate transporter; Region: 2A0114; TIGR00893 557722002746 putative substrate translocation pore; other site 557722002747 Cupin domain; Region: Cupin_2; pfam07883 557722002748 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722002749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722002750 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 557722002751 CoenzymeA binding site [chemical binding]; other site 557722002752 subunit interaction site [polypeptide binding]; other site 557722002753 PHB binding site; other site 557722002754 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557722002755 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 557722002756 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 557722002757 hydrophobic ligand binding site; other site 557722002758 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557722002759 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 557722002760 FMN-binding pocket [chemical binding]; other site 557722002761 flavin binding motif; other site 557722002762 phosphate binding motif [ion binding]; other site 557722002763 beta-alpha-beta structure motif; other site 557722002764 NAD binding pocket [chemical binding]; other site 557722002765 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 557722002766 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557722002767 catalytic loop [active] 557722002768 iron binding site [ion binding]; other site 557722002769 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722002770 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 557722002771 DNA binding residues [nucleotide binding] 557722002772 dimerization interface [polypeptide binding]; other site 557722002773 Flavin Reductases; Region: FlaRed; cl00801 557722002774 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 557722002775 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 557722002776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 557722002777 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 557722002778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722002779 NAD(P) binding site [chemical binding]; other site 557722002780 active site 557722002781 aminotransferase; Validated; Region: PRK07046 557722002782 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 557722002783 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722002784 catalytic residue [active] 557722002785 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 557722002786 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 557722002787 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 557722002788 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557722002789 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557722002790 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557722002791 PapC N-terminal domain; Region: PapC_N; pfam13954 557722002792 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557722002793 PapC C-terminal domain; Region: PapC_C; pfam13953 557722002794 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557722002795 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557722002796 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 557722002797 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 557722002798 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 557722002799 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 557722002800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722002801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722002802 active site 557722002803 phosphorylation site [posttranslational modification] 557722002804 intermolecular recognition site; other site 557722002805 dimerization interface [polypeptide binding]; other site 557722002806 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 557722002807 DNA binding residues [nucleotide binding] 557722002808 dimerization interface [polypeptide binding]; other site 557722002809 short chain dehydrogenase; Provisional; Region: PRK08177 557722002810 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 557722002811 NAD(P) binding site [chemical binding]; other site 557722002812 active site 557722002813 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722002814 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 557722002815 acyl-activating enzyme (AAE) consensus motif; other site 557722002816 AMP binding site [chemical binding]; other site 557722002817 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722002818 Putative dehydrogenase domain of multifunctional non-ribosomal peptide synthetases and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3320 557722002819 Male sterility protein; Region: NAD_binding_4; pfam07993 557722002820 NAD(P) binding site [chemical binding]; other site 557722002821 active site 557722002822 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 557722002823 non-specific DNA binding site [nucleotide binding]; other site 557722002824 salt bridge; other site 557722002825 sequence-specific DNA binding site [nucleotide binding]; other site 557722002826 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 557722002827 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722002828 DNA binding residues [nucleotide binding] 557722002829 dimerization interface [polypeptide binding]; other site 557722002830 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 557722002831 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557722002832 NAD(P) binding site [chemical binding]; other site 557722002833 catalytic residues [active] 557722002834 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557722002835 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 557722002836 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 557722002837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722002838 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 557722002839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722002840 NAD(P) binding site [chemical binding]; other site 557722002841 active site 557722002842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722002843 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557722002844 NAD(P) binding site [chemical binding]; other site 557722002845 active site 557722002846 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 557722002847 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 557722002848 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 557722002849 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557722002850 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 557722002851 FtsX-like permease family; Region: FtsX; pfam02687 557722002852 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557722002853 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557722002854 Walker A/P-loop; other site 557722002855 ATP binding site [chemical binding]; other site 557722002856 Q-loop/lid; other site 557722002857 ABC transporter signature motif; other site 557722002858 Walker B; other site 557722002859 D-loop; other site 557722002860 H-loop/switch region; other site 557722002861 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 557722002862 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 557722002863 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 557722002864 Predicted methyltransferase [General function prediction only]; Region: COG3897 557722002865 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722002866 S-adenosylmethionine binding site [chemical binding]; other site 557722002867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 557722002868 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 557722002869 ATP cone domain; Region: ATP-cone; pfam03477 557722002870 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 557722002871 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 557722002872 catalytic motif [active] 557722002873 Zn binding site [ion binding]; other site 557722002874 RibD C-terminal domain; Region: RibD_C; cl17279 557722002875 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 557722002876 Lumazine binding domain; Region: Lum_binding; pfam00677 557722002877 Lumazine binding domain; Region: Lum_binding; pfam00677 557722002878 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 557722002879 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 557722002880 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 557722002881 dimerization interface [polypeptide binding]; other site 557722002882 active site 557722002883 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 557722002884 homopentamer interface [polypeptide binding]; other site 557722002885 active site 557722002886 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 557722002887 thiamine monophosphate kinase; Provisional; Region: PRK05731 557722002888 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 557722002889 ATP binding site [chemical binding]; other site 557722002890 dimerization interface [polypeptide binding]; other site 557722002891 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 557722002892 tetramer interfaces [polypeptide binding]; other site 557722002893 binuclear metal-binding site [ion binding]; other site 557722002894 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722002895 Predicted aspartyl protease [General function prediction only]; Region: COG3577 557722002896 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 557722002897 catalytic motif [active] 557722002898 Catalytic residue [active] 557722002899 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 557722002900 dimerization interface [polypeptide binding]; other site 557722002901 active site 557722002902 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 557722002903 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 557722002904 cobalamin binding residues [chemical binding]; other site 557722002905 putative BtuC binding residues; other site 557722002906 dimer interface [polypeptide binding]; other site 557722002907 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 557722002908 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 557722002909 TPP-binding site; other site 557722002910 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 557722002911 PYR/PP interface [polypeptide binding]; other site 557722002912 dimer interface [polypeptide binding]; other site 557722002913 TPP binding site [chemical binding]; other site 557722002914 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557722002915 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557722002916 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557722002917 substrate binding pocket [chemical binding]; other site 557722002918 chain length determination region; other site 557722002919 substrate-Mg2+ binding site; other site 557722002920 catalytic residues [active] 557722002921 aspartate-rich region 1; other site 557722002922 active site lid residues [active] 557722002923 aspartate-rich region 2; other site 557722002924 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 557722002925 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 557722002926 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 557722002927 putative active site pocket [active] 557722002928 metal binding site [ion binding]; metal-binding site 557722002929 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 557722002930 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 557722002931 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 557722002932 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 557722002933 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557722002934 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557722002935 Walker A/P-loop; other site 557722002936 ATP binding site [chemical binding]; other site 557722002937 Q-loop/lid; other site 557722002938 ABC transporter signature motif; other site 557722002939 Walker B; other site 557722002940 D-loop; other site 557722002941 H-loop/switch region; other site 557722002942 CHASE2 domain; Region: CHASE2; pfam05226 557722002943 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 557722002944 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557722002945 PAS domain; Region: PAS; smart00091 557722002946 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 557722002947 dimer interface [polypeptide binding]; other site 557722002948 phosphorylation site [posttranslational modification] 557722002949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722002950 ATP binding site [chemical binding]; other site 557722002951 Mg2+ binding site [ion binding]; other site 557722002952 G-X-G motif; other site 557722002953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 557722002954 FecR protein; Region: FecR; pfam04773 557722002955 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 557722002956 amphipathic channel; other site 557722002957 Asn-Pro-Ala signature motifs; other site 557722002958 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722002959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722002960 active site 557722002961 phosphorylation site [posttranslational modification] 557722002962 intermolecular recognition site; other site 557722002963 dimerization interface [polypeptide binding]; other site 557722002964 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 557722002965 DNA binding site [nucleotide binding] 557722002966 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 557722002967 dimer interface [polypeptide binding]; other site 557722002968 substrate binding site [chemical binding]; other site 557722002969 metal binding sites [ion binding]; metal-binding site 557722002970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3228 557722002971 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557722002972 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557722002973 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722002974 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 557722002975 substrate binding pocket [chemical binding]; other site 557722002976 membrane-bound complex binding site; other site 557722002977 hinge residues; other site 557722002978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722002979 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557722002980 Coenzyme A binding pocket [chemical binding]; other site 557722002981 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 557722002982 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 557722002983 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 557722002984 ethanolamine permease; Region: 2A0305; TIGR00908 557722002985 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 557722002986 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557722002987 NAD(P) binding site [chemical binding]; other site 557722002988 catalytic residues [active] 557722002989 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 557722002990 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 557722002991 putative active site [active] 557722002992 heme pocket [chemical binding]; other site 557722002993 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722002994 Walker A motif; other site 557722002995 ATP binding site [chemical binding]; other site 557722002996 Walker B motif; other site 557722002997 arginine finger; other site 557722002998 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722002999 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 557722003000 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557722003001 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557722003002 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557722003003 aromatic acid decarboxylase; Validated; Region: PRK05920 557722003004 Flavoprotein; Region: Flavoprotein; pfam02441 557722003005 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5645 557722003006 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 557722003007 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 557722003008 NAD binding site [chemical binding]; other site 557722003009 active site 557722003010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 557722003011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 557722003012 MORN repeat; Region: MORN; cl14787 557722003013 Peptidase C13 family; Region: Peptidase_C13; pfam01650 557722003014 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 557722003015 putative active site [active] 557722003016 putative catalytic site [active] 557722003017 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 557722003018 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 557722003019 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557722003020 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557722003021 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 557722003022 active site 557722003023 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557722003024 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 557722003025 active site 557722003026 DNA binding site [nucleotide binding] 557722003027 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 557722003028 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 557722003029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722003030 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 557722003031 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 557722003032 putative catalytic cysteine [active] 557722003033 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 557722003034 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 557722003035 active site 557722003036 (T/H)XGH motif; other site 557722003037 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 557722003038 Uncharacterized conserved protein [Function unknown]; Region: COG1576 557722003039 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 557722003040 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557722003041 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557722003042 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 557722003043 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557722003044 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 557722003045 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722003046 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 557722003047 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 557722003048 Sporulation related domain; Region: SPOR; pfam05036 557722003049 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 557722003050 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557722003051 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 557722003052 hypothetical protein; Provisional; Region: PRK00341 557722003053 lipoate-protein ligase B; Provisional; Region: PRK14342 557722003054 lipoyl synthase; Provisional; Region: PRK05481 557722003055 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 557722003056 FeS/SAM binding site; other site 557722003057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722003058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722003059 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 557722003060 dimerization interface [polypeptide binding]; other site 557722003061 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722003062 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557722003063 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 557722003064 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722003065 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557722003066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 557722003067 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 557722003068 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 557722003069 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 557722003070 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 557722003071 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557722003072 HIGH motif; other site 557722003073 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557722003074 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557722003075 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557722003076 active site 557722003077 KMSKS motif; other site 557722003078 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 557722003079 tRNA binding surface [nucleotide binding]; other site 557722003080 Uncharacterized conserved protein [Function unknown]; Region: COG1434 557722003081 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 557722003082 putative active site [active] 557722003083 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 557722003084 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 557722003085 putative active site [active] 557722003086 catalytic triad [active] 557722003087 putative dimer interface [polypeptide binding]; other site 557722003088 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 557722003089 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 557722003090 Transporter associated domain; Region: CorC_HlyC; smart01091 557722003091 metal-binding heat shock protein; Provisional; Region: PRK00016 557722003092 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 557722003093 PhoH-like protein; Region: PhoH; pfam02562 557722003094 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 557722003095 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557722003096 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 557722003097 FeS/SAM binding site; other site 557722003098 TRAM domain; Region: TRAM; pfam01938 557722003099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4517 557722003100 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722003101 Sel1-like repeats; Region: SEL1; smart00671 557722003102 Sel1-like repeats; Region: SEL1; smart00671 557722003103 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 557722003104 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 557722003105 inhibitor-cofactor binding pocket; inhibition site 557722003106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722003107 catalytic residue [active] 557722003108 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 557722003109 thiamine phosphate binding site [chemical binding]; other site 557722003110 active site 557722003111 pyrophosphate binding site [ion binding]; other site 557722003112 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 557722003113 dimer interface [polypeptide binding]; other site 557722003114 substrate binding site [chemical binding]; other site 557722003115 ATP binding site [chemical binding]; other site 557722003116 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 557722003117 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 557722003118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722003119 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 557722003120 dimer interface [polypeptide binding]; other site 557722003121 phosphorylation site [posttranslational modification] 557722003122 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722003123 ATP binding site [chemical binding]; other site 557722003124 Mg2+ binding site [ion binding]; other site 557722003125 G-X-G motif; other site 557722003126 Response regulator receiver domain; Region: Response_reg; pfam00072 557722003127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722003128 active site 557722003129 phosphorylation site [posttranslational modification] 557722003130 intermolecular recognition site; other site 557722003131 dimerization interface [polypeptide binding]; other site 557722003132 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722003133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722003134 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 557722003135 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722003136 active site 557722003137 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 557722003138 CoenzymeA binding site [chemical binding]; other site 557722003139 subunit interaction site [polypeptide binding]; other site 557722003140 PHB binding site; other site 557722003141 AMP nucleosidase; Provisional; Region: PRK08292 557722003142 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 557722003143 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 557722003144 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 557722003145 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 557722003146 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 557722003147 pseudouridine synthase; Region: TIGR00093 557722003148 active site 557722003149 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 557722003150 heme-binding site [chemical binding]; other site 557722003151 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 557722003152 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722003153 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 557722003154 putative DNA binding site [nucleotide binding]; other site 557722003155 putative Zn2+ binding site [ion binding]; other site 557722003156 AsnC family; Region: AsnC_trans_reg; pfam01037 557722003157 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 557722003158 Cation efflux family; Region: Cation_efflux; cl00316 557722003159 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 557722003160 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 557722003161 ATP binding site [chemical binding]; other site 557722003162 putative Mg++ binding site [ion binding]; other site 557722003163 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 557722003164 nucleotide binding region [chemical binding]; other site 557722003165 ATP-binding site [chemical binding]; other site 557722003166 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 557722003167 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 557722003168 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722003169 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 557722003170 putative metal binding site [ion binding]; other site 557722003171 short chain dehydrogenase; Provisional; Region: PRK06181 557722003172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722003173 NAD(P) binding site [chemical binding]; other site 557722003174 active site 557722003175 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 557722003176 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722003177 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 557722003178 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 557722003179 active site 557722003180 dimer interface [polypeptide binding]; other site 557722003181 non-prolyl cis peptide bond; other site 557722003182 insertion regions; other site 557722003183 Isochorismatase family; Region: Isochorismatase; pfam00857 557722003184 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 557722003185 catalytic triad [active] 557722003186 conserved cis-peptide bond; other site 557722003187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 557722003188 Uncharacterized conserved protein [Function unknown]; Region: COG1432 557722003189 LabA_like proteins; Region: LabA; cd10911 557722003190 putative metal binding site [ion binding]; other site 557722003191 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 557722003192 ATP binding site [chemical binding]; other site 557722003193 Mg++ binding site [ion binding]; other site 557722003194 motif III; other site 557722003195 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 557722003196 nucleotide binding region [chemical binding]; other site 557722003197 ATP-binding site [chemical binding]; other site 557722003198 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 557722003199 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722003200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722003201 active site 557722003202 phosphorylation site [posttranslational modification] 557722003203 intermolecular recognition site; other site 557722003204 dimerization interface [polypeptide binding]; other site 557722003205 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 557722003206 DNA binding residues [nucleotide binding] 557722003207 dimerization interface [polypeptide binding]; other site 557722003208 Response regulator receiver domain; Region: Response_reg; pfam00072 557722003209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722003210 active site 557722003211 phosphorylation site [posttranslational modification] 557722003212 intermolecular recognition site; other site 557722003213 dimerization interface [polypeptide binding]; other site 557722003214 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 557722003215 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 557722003216 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 557722003217 substrate binding pocket [chemical binding]; other site 557722003218 membrane-bound complex binding site; other site 557722003219 hinge residues; other site 557722003220 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 557722003221 substrate binding pocket [chemical binding]; other site 557722003222 membrane-bound complex binding site; other site 557722003223 hinge residues; other site 557722003224 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 557722003225 putative active site [active] 557722003226 heme pocket [chemical binding]; other site 557722003227 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 557722003228 dimer interface [polypeptide binding]; other site 557722003229 phosphorylation site [posttranslational modification] 557722003230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722003231 ATP binding site [chemical binding]; other site 557722003232 Mg2+ binding site [ion binding]; other site 557722003233 G-X-G motif; other site 557722003234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722003235 active site 557722003236 phosphorylation site [posttranslational modification] 557722003237 intermolecular recognition site; other site 557722003238 dimerization interface [polypeptide binding]; other site 557722003239 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 557722003240 putative binding surface; other site 557722003241 active site 557722003242 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557722003243 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557722003244 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722003245 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 557722003246 NADPH bind site [chemical binding]; other site 557722003247 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 557722003248 putative FMN binding site [chemical binding]; other site 557722003249 NADPH bind site [chemical binding]; other site 557722003250 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 557722003251 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 557722003252 active site 557722003253 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 557722003254 catalytic triad [active] 557722003255 dimer interface [polypeptide binding]; other site 557722003256 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 557722003257 active site 557722003258 motif I; other site 557722003259 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557722003260 motif II; other site 557722003261 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 557722003262 IHF dimer interface [polypeptide binding]; other site 557722003263 IHF - DNA interface [nucleotide binding]; other site 557722003264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722003265 active site 557722003266 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 557722003267 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 557722003268 substrate binding pocket [chemical binding]; other site 557722003269 membrane-bound complex binding site; other site 557722003270 hinge residues; other site 557722003271 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 557722003272 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557722003273 Walker A/P-loop; other site 557722003274 ATP binding site [chemical binding]; other site 557722003275 Q-loop/lid; other site 557722003276 ABC transporter signature motif; other site 557722003277 Walker B; other site 557722003278 D-loop; other site 557722003279 H-loop/switch region; other site 557722003280 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722003281 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722003282 dimer interface [polypeptide binding]; other site 557722003283 conserved gate region; other site 557722003284 putative PBP binding loops; other site 557722003285 ABC-ATPase subunit interface; other site 557722003286 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 557722003287 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 557722003288 Predicted membrane protein [Function unknown]; Region: COG1297 557722003289 BCCT family transporter; Region: BCCT; cl00569 557722003290 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 557722003291 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722003292 Walker A motif; other site 557722003293 ATP binding site [chemical binding]; other site 557722003294 Walker B motif; other site 557722003295 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557722003296 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557722003297 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 557722003298 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 557722003299 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 557722003300 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 557722003301 Cupin domain; Region: Cupin_2; cl17218 557722003302 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722003303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722003304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722003305 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722003306 putative substrate translocation pore; other site 557722003307 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 557722003308 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 557722003309 dimer interface [polypeptide binding]; other site 557722003310 active site 557722003311 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 557722003312 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 557722003313 dimer interface [polypeptide binding]; other site 557722003314 acyl-activating enzyme (AAE) consensus motif; other site 557722003315 putative active site [active] 557722003316 AMP binding site [chemical binding]; other site 557722003317 putative CoA binding site [chemical binding]; other site 557722003318 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 557722003319 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 557722003320 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 557722003321 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 557722003322 DNA binding residues [nucleotide binding] 557722003323 dimerization interface [polypeptide binding]; other site 557722003324 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557722003325 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 557722003326 metal-binding site [ion binding] 557722003327 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557722003328 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 557722003329 metal-binding site [ion binding] 557722003330 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722003331 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557722003332 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 557722003333 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 557722003334 putative active site [active] 557722003335 PhoH-like protein; Region: PhoH; pfam02562 557722003336 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 557722003337 trimer interface [polypeptide binding]; other site 557722003338 dimer interface [polypeptide binding]; other site 557722003339 putative active site [active] 557722003340 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 557722003341 MoaE interaction surface [polypeptide binding]; other site 557722003342 MoeB interaction surface [polypeptide binding]; other site 557722003343 thiocarboxylated glycine; other site 557722003344 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 557722003345 MoaE homodimer interface [polypeptide binding]; other site 557722003346 MoaD interaction [polypeptide binding]; other site 557722003347 active site residues [active] 557722003348 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 557722003349 MPT binding site; other site 557722003350 trimer interface [polypeptide binding]; other site 557722003351 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 557722003352 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 557722003353 dimer interface [polypeptide binding]; other site 557722003354 putative functional site; other site 557722003355 putative MPT binding site; other site 557722003356 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 557722003357 Peptidase family U32; Region: Peptidase_U32; pfam01136 557722003358 putative protease; Provisional; Region: PRK15447 557722003359 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 557722003360 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 557722003361 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 557722003362 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 557722003363 putative active site [active] 557722003364 putative metal binding site [ion binding]; other site 557722003365 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 557722003366 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 557722003367 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 557722003368 generic binding surface I; other site 557722003369 generic binding surface II; other site 557722003370 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 557722003371 putative active site [active] 557722003372 putative catalytic site [active] 557722003373 putative Mg binding site IVb [ion binding]; other site 557722003374 putative phosphate binding site [ion binding]; other site 557722003375 putative DNA binding site [nucleotide binding]; other site 557722003376 putative Mg binding site IVa [ion binding]; other site 557722003377 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 557722003378 Uncharacterized conserved protein [Function unknown]; Region: COG4104 557722003379 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 557722003380 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 557722003381 G1 box; other site 557722003382 putative GEF interaction site [polypeptide binding]; other site 557722003383 GTP/Mg2+ binding site [chemical binding]; other site 557722003384 Switch I region; other site 557722003385 G2 box; other site 557722003386 G3 box; other site 557722003387 Switch II region; other site 557722003388 G4 box; other site 557722003389 G5 box; other site 557722003390 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 557722003391 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 557722003392 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 557722003393 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 557722003394 N-terminal plug; other site 557722003395 ligand-binding site [chemical binding]; other site 557722003396 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722003397 FecR protein; Region: FecR; pfam04773 557722003398 RNA polymerase sigma factor; Provisional; Region: PRK12528 557722003399 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722003400 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 557722003401 DNA binding residues [nucleotide binding] 557722003402 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 557722003403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722003404 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 557722003405 EamA-like transporter family; Region: EamA; pfam00892 557722003406 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557722003407 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 557722003408 dimerization interface [polypeptide binding]; other site 557722003409 ligand binding site [chemical binding]; other site 557722003410 NADP binding site [chemical binding]; other site 557722003411 catalytic site [active] 557722003412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722003413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722003414 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 557722003415 putative effector binding pocket; other site 557722003416 dimerization interface [polypeptide binding]; other site 557722003417 Outer membrane efflux protein; Region: OEP; pfam02321 557722003418 Outer membrane efflux protein; Region: OEP; pfam02321 557722003419 Fusaric acid resistance protein family; Region: FUSC; pfam04632 557722003420 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 557722003421 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557722003422 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722003423 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722003424 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 557722003425 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 557722003426 Walker A/P-loop; other site 557722003427 ATP binding site [chemical binding]; other site 557722003428 Q-loop/lid; other site 557722003429 ABC transporter signature motif; other site 557722003430 Walker B; other site 557722003431 D-loop; other site 557722003432 H-loop/switch region; other site 557722003433 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 557722003434 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722003435 dimer interface [polypeptide binding]; other site 557722003436 conserved gate region; other site 557722003437 ABC-ATPase subunit interface; other site 557722003438 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 557722003439 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722003440 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722003441 ABC-ATPase subunit interface; other site 557722003442 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557722003443 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 557722003444 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 557722003445 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 557722003446 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 557722003447 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 557722003448 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 557722003449 short chain dehydrogenase; Provisional; Region: PRK05693 557722003450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722003451 NAD(P) binding site [chemical binding]; other site 557722003452 active site 557722003453 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722003454 Uncharacterized conserved protein [Function unknown]; Region: COG4273 557722003455 transcriptional regulator NarL; Provisional; Region: PRK10651 557722003456 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722003457 active site 557722003458 phosphorylation site [posttranslational modification] 557722003459 intermolecular recognition site; other site 557722003460 dimerization interface [polypeptide binding]; other site 557722003461 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 557722003462 DNA binding residues [nucleotide binding] 557722003463 dimerization interface [polypeptide binding]; other site 557722003464 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 557722003465 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 557722003466 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 557722003467 dimerization interface [polypeptide binding]; other site 557722003468 Histidine kinase; Region: HisKA_3; pfam07730 557722003469 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722003470 ATP binding site [chemical binding]; other site 557722003471 Mg2+ binding site [ion binding]; other site 557722003472 G-X-G motif; other site 557722003473 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 557722003474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722003475 putative substrate translocation pore; other site 557722003476 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 557722003477 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 557722003478 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 557722003479 [4Fe-4S] binding site [ion binding]; other site 557722003480 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 557722003481 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 557722003482 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 557722003483 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 557722003484 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 557722003485 molybdopterin cofactor binding site; other site 557722003486 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 557722003487 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 557722003488 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 557722003489 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 557722003490 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557722003491 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 557722003492 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 557722003493 FeS/SAM binding site; other site 557722003494 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 557722003495 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 557722003496 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 557722003497 substrate binding pocket [chemical binding]; other site 557722003498 membrane-bound complex binding site; other site 557722003499 hinge residues; other site 557722003500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 557722003501 YheO-like PAS domain; Region: PAS_6; pfam08348 557722003502 HTH domain; Region: HTH_22; pfam13309 557722003503 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722003504 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557722003505 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 557722003506 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 557722003507 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 557722003508 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 557722003509 ATP binding site [chemical binding]; other site 557722003510 Mg++ binding site [ion binding]; other site 557722003511 motif III; other site 557722003512 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 557722003513 nucleotide binding region [chemical binding]; other site 557722003514 ATP-binding site [chemical binding]; other site 557722003515 AMP-binding domain protein; Validated; Region: PRK07529 557722003516 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722003517 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 557722003518 acyl-activating enzyme (AAE) consensus motif; other site 557722003519 putative AMP binding site [chemical binding]; other site 557722003520 putative active site [active] 557722003521 putative CoA binding site [chemical binding]; other site 557722003522 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 557722003523 putative hydrolase; Provisional; Region: PRK11460 557722003524 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557722003525 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 557722003526 substrate binding pocket [chemical binding]; other site 557722003527 membrane-bound complex binding site; other site 557722003528 hinge residues; other site 557722003529 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 557722003530 SnoaL-like domain; Region: SnoaL_2; pfam12680 557722003531 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 557722003532 putative C-terminal domain interface [polypeptide binding]; other site 557722003533 putative GSH binding site [chemical binding]; other site 557722003534 putative dimer interface [polypeptide binding]; other site 557722003535 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 557722003536 putative N-terminal domain interface [polypeptide binding]; other site 557722003537 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 557722003538 GIY-YIG motif/motif A; other site 557722003539 putative active site [active] 557722003540 putative metal binding site [ion binding]; other site 557722003541 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 557722003542 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 557722003543 trimer interface [polypeptide binding]; other site 557722003544 active site 557722003545 substrate binding site [chemical binding]; other site 557722003546 CoA binding site [chemical binding]; other site 557722003547 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722003548 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 557722003549 C-terminal domain interface [polypeptide binding]; other site 557722003550 GSH binding site (G-site) [chemical binding]; other site 557722003551 dimer interface [polypeptide binding]; other site 557722003552 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 557722003553 substrate binding pocket (H-site) [chemical binding]; other site 557722003554 N-terminal domain interface [polypeptide binding]; other site 557722003555 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 557722003556 Nucleoid-associated protein [General function prediction only]; Region: COG3081 557722003557 nucleoid-associated protein NdpA; Validated; Region: PRK00378 557722003558 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 557722003559 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 557722003560 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 557722003561 hydrophobic ligand binding site; other site 557722003562 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 557722003563 Isochorismatase family; Region: Isochorismatase; pfam00857 557722003564 catalytic triad [active] 557722003565 dimer interface [polypeptide binding]; other site 557722003566 conserved cis-peptide bond; other site 557722003567 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722003568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722003569 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 557722003570 dimerization interface [polypeptide binding]; other site 557722003571 substrate binding pocket [chemical binding]; other site 557722003572 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722003573 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 557722003574 C-terminal domain interface [polypeptide binding]; other site 557722003575 GSH binding site (G-site) [chemical binding]; other site 557722003576 dimer interface [polypeptide binding]; other site 557722003577 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 557722003578 dimer interface [polypeptide binding]; other site 557722003579 N-terminal domain interface [polypeptide binding]; other site 557722003580 putative substrate binding pocket (H-site) [chemical binding]; other site 557722003581 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 557722003582 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 557722003583 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 557722003584 switch II binding region; other site 557722003585 Rac1 P-loop interaction site [polypeptide binding]; other site 557722003586 GTP binding residues [chemical binding]; other site 557722003587 switch I binding region; other site 557722003588 ADP-ribosyltransferase exoenzyme; Region: ADPrib_exo_Tox; pfam03496 557722003589 active site 557722003590 conformational flexibility of ligand binding pocket; other site 557722003591 ADP-ribosylating toxin turn-turn motif; other site 557722003592 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 557722003593 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722003594 S-adenosylmethionine binding site [chemical binding]; other site 557722003595 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 557722003596 transmembrane helices; other site 557722003597 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 557722003598 TrkA-C domain; Region: TrkA_C; pfam02080 557722003599 TrkA-C domain; Region: TrkA_C; pfam02080 557722003600 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 557722003601 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 557722003602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722003603 Walker A/P-loop; other site 557722003604 ATP binding site [chemical binding]; other site 557722003605 Q-loop/lid; other site 557722003606 ABC transporter signature motif; other site 557722003607 Walker B; other site 557722003608 D-loop; other site 557722003609 H-loop/switch region; other site 557722003610 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557722003611 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 557722003612 TM-ABC transporter signature motif; other site 557722003613 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 557722003614 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557722003615 zinc binding site [ion binding]; other site 557722003616 putative ligand binding site [chemical binding]; other site 557722003617 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 557722003618 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557722003619 HIGH motif; other site 557722003620 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557722003621 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557722003622 active site 557722003623 KMSKS motif; other site 557722003624 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 557722003625 tRNA binding surface [nucleotide binding]; other site 557722003626 anticodon binding site; other site 557722003627 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 557722003628 DNA polymerase III subunit chi; Validated; Region: PRK05728 557722003629 multifunctional aminopeptidase A; Provisional; Region: PRK00913 557722003630 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 557722003631 interface (dimer of trimers) [polypeptide binding]; other site 557722003632 Substrate-binding/catalytic site; other site 557722003633 Zn-binding sites [ion binding]; other site 557722003634 Cupin domain; Region: Cupin_2; pfam07883 557722003635 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722003636 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722003637 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722003638 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 557722003639 Predicted permeases [General function prediction only]; Region: COG0795 557722003640 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 557722003641 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 557722003642 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 557722003643 Predicted membrane protein/domain [Function unknown]; Region: COG1714 557722003644 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 557722003645 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 557722003646 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 557722003647 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 557722003648 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 557722003649 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 557722003650 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 557722003651 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 557722003652 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 557722003653 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 557722003654 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 557722003655 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 557722003656 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 557722003657 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 557722003658 Protein export membrane protein; Region: SecD_SecF; cl14618 557722003659 hypothetical protein; Provisional; Region: PRK11280 557722003660 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557722003661 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 557722003662 active site 557722003663 dimerization interface [polypeptide binding]; other site 557722003664 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 557722003665 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 557722003666 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 557722003667 serine O-acetyltransferase; Region: cysE; TIGR01172 557722003668 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 557722003669 trimer interface [polypeptide binding]; other site 557722003670 active site 557722003671 substrate binding site [chemical binding]; other site 557722003672 CoA binding site [chemical binding]; other site 557722003673 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 557722003674 Rrf2 family protein; Region: rrf2_super; TIGR00738 557722003675 cysteine desulfurase; Provisional; Region: PRK14012 557722003676 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557722003677 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722003678 catalytic residue [active] 557722003679 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 557722003680 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 557722003681 trimerization site [polypeptide binding]; other site 557722003682 active site 557722003683 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 557722003684 co-chaperone HscB; Provisional; Region: hscB; PRK00294 557722003685 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 557722003686 HSP70 interaction site [polypeptide binding]; other site 557722003687 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 557722003688 chaperone protein HscA; Provisional; Region: hscA; PRK05183 557722003689 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 557722003690 nucleotide binding site [chemical binding]; other site 557722003691 putative NEF/HSP70 interaction site [polypeptide binding]; other site 557722003692 SBD interface [polypeptide binding]; other site 557722003693 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557722003694 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 557722003695 catalytic loop [active] 557722003696 iron binding site [ion binding]; other site 557722003697 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 557722003698 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 557722003699 active site 557722003700 multimer interface [polypeptide binding]; other site 557722003701 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 557722003702 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 557722003703 FeS/SAM binding site; other site 557722003704 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 557722003705 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 557722003706 binding surface 557722003707 TPR motif; other site 557722003708 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 557722003709 binding surface 557722003710 TPR motif; other site 557722003711 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 557722003712 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 557722003713 non-specific DNA binding site [nucleotide binding]; other site 557722003714 salt bridge; other site 557722003715 sequence-specific DNA binding site [nucleotide binding]; other site 557722003716 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 557722003717 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 557722003718 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557722003719 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557722003720 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557722003721 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 557722003722 dimer interface [polypeptide binding]; other site 557722003723 motif 1; other site 557722003724 active site 557722003725 motif 2; other site 557722003726 motif 3; other site 557722003727 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 557722003728 anticodon binding site; other site 557722003729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 557722003730 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 557722003731 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 557722003732 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 557722003733 Trp docking motif [polypeptide binding]; other site 557722003734 active site 557722003735 GTP-binding protein Der; Reviewed; Region: PRK00093 557722003736 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 557722003737 G1 box; other site 557722003738 GTP/Mg2+ binding site [chemical binding]; other site 557722003739 Switch I region; other site 557722003740 G2 box; other site 557722003741 Switch II region; other site 557722003742 G3 box; other site 557722003743 G4 box; other site 557722003744 G5 box; other site 557722003745 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 557722003746 G1 box; other site 557722003747 GTP/Mg2+ binding site [chemical binding]; other site 557722003748 Switch I region; other site 557722003749 G2 box; other site 557722003750 G3 box; other site 557722003751 Switch II region; other site 557722003752 G4 box; other site 557722003753 G5 box; other site 557722003754 methionine aminotransferase; Validated; Region: PRK09082 557722003755 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 557722003756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722003757 homodimer interface [polypeptide binding]; other site 557722003758 catalytic residue [active] 557722003759 C-N hydrolase family amidase; Provisional; Region: PRK10438 557722003760 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 557722003761 putative active site [active] 557722003762 catalytic triad [active] 557722003763 dimer interface [polypeptide binding]; other site 557722003764 multimer interface [polypeptide binding]; other site 557722003765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 557722003766 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 557722003767 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722003768 active site 557722003769 catalytic tetrad [active] 557722003770 2-isopropylmalate synthase; Validated; Region: PRK03739 557722003771 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 557722003772 active site 557722003773 catalytic residues [active] 557722003774 metal binding site [ion binding]; metal-binding site 557722003775 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 557722003776 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 557722003777 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 557722003778 N-terminal plug; other site 557722003779 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 557722003780 ligand-binding site [chemical binding]; other site 557722003781 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557722003782 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 557722003783 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 557722003784 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557722003785 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 557722003786 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557722003787 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722003788 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 557722003789 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 557722003790 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 557722003791 Isochorismatase family; Region: Isochorismatase; pfam00857 557722003792 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 557722003793 catalytic triad [active] 557722003794 conserved cis-peptide bond; other site 557722003795 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 557722003796 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 557722003797 conserved cys residue [active] 557722003798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722003799 DctM-like transporters; Region: DctM; pfam06808 557722003800 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557722003801 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 557722003802 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557722003803 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557722003804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722003805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722003806 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 557722003807 dimerization interface [polypeptide binding]; other site 557722003808 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 557722003809 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 557722003810 generic binding surface II; other site 557722003811 generic binding surface I; other site 557722003812 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 557722003813 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722003814 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 557722003815 dimerization interface [polypeptide binding]; other site 557722003816 substrate binding pocket [chemical binding]; other site 557722003817 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 557722003818 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 557722003819 active site 557722003820 Zn binding site [ion binding]; other site 557722003821 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 557722003822 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722003823 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 557722003824 DNA binding residues [nucleotide binding] 557722003825 dimerization interface [polypeptide binding]; other site 557722003826 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 557722003827 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 557722003828 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 557722003829 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 557722003830 active site 557722003831 GMP synthase; Reviewed; Region: guaA; PRK00074 557722003832 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 557722003833 AMP/PPi binding site [chemical binding]; other site 557722003834 candidate oxyanion hole; other site 557722003835 catalytic triad [active] 557722003836 potential glutamine specificity residues [chemical binding]; other site 557722003837 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 557722003838 ATP Binding subdomain [chemical binding]; other site 557722003839 Dimerization subdomain; other site 557722003840 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 557722003841 active site 557722003842 cosubstrate binding site; other site 557722003843 substrate binding site [chemical binding]; other site 557722003844 catalytic site [active] 557722003845 Chordopoxvirus A20R protein; Region: Chordopox_A20R; pfam05941 557722003846 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 557722003847 oxidoreductase; Provisional; Region: PRK06196 557722003848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722003849 NAD(P) binding site [chemical binding]; other site 557722003850 active site 557722003851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722003852 putative substrate translocation pore; other site 557722003853 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722003854 Cupin; Region: Cupin_6; pfam12852 557722003855 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722003856 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722003857 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 557722003858 Prostaglandin dehydrogenases; Region: PGDH; cd05288 557722003859 NAD(P) binding site [chemical binding]; other site 557722003860 substrate binding site [chemical binding]; other site 557722003861 dimer interface [polypeptide binding]; other site 557722003862 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 557722003863 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 557722003864 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 557722003865 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 557722003866 nucleoside/Zn binding site; other site 557722003867 dimer interface [polypeptide binding]; other site 557722003868 catalytic motif [active] 557722003869 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 557722003870 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 557722003871 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 557722003872 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 557722003873 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 557722003874 substrate binding pocket [chemical binding]; other site 557722003875 membrane-bound complex binding site; other site 557722003876 hinge residues; other site 557722003877 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 557722003878 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722003879 catalytic residue [active] 557722003880 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 557722003881 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 557722003882 dimerization interface [polypeptide binding]; other site 557722003883 ATP binding site [chemical binding]; other site 557722003884 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 557722003885 dimerization interface [polypeptide binding]; other site 557722003886 ATP binding site [chemical binding]; other site 557722003887 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 557722003888 putative active site [active] 557722003889 catalytic triad [active] 557722003890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 557722003891 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 557722003892 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 557722003893 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 557722003894 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 557722003895 active site turn [active] 557722003896 phosphorylation site [posttranslational modification] 557722003897 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 557722003898 HPr interaction site; other site 557722003899 glycerol kinase (GK) interaction site [polypeptide binding]; other site 557722003900 active site 557722003901 phosphorylation site [posttranslational modification] 557722003902 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 557722003903 regulatory protein interface [polypeptide binding]; other site 557722003904 active site 557722003905 regulatory phosphorylation site [posttranslational modification]; other site 557722003906 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557722003907 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557722003908 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557722003909 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557722003910 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 557722003911 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 557722003912 dimer interface [polypeptide binding]; other site 557722003913 active site 557722003914 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 557722003915 dimer interface [polypeptide binding]; other site 557722003916 active site 557722003917 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 557722003918 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 557722003919 active site 557722003920 dimer interface [polypeptide binding]; other site 557722003921 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557722003922 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722003923 DNA-binding site [nucleotide binding]; DNA binding site 557722003924 UTRA domain; Region: UTRA; pfam07702 557722003925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 557722003926 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557722003927 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 557722003928 nudix motif; other site 557722003929 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 557722003930 putative active site [active] 557722003931 putative CoA binding site [chemical binding]; other site 557722003932 nudix motif; other site 557722003933 metal binding site [ion binding]; metal-binding site 557722003934 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 557722003935 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 557722003936 trimer interface [polypeptide binding]; other site 557722003937 putative metal binding site [ion binding]; other site 557722003938 Predicted Fe-S protein [General function prediction only]; Region: COG3313 557722003939 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 557722003940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722003941 ATP-grasp domain; Region: ATP-grasp; pfam02222 557722003942 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 557722003943 active site 557722003944 catalytic triad [active] 557722003945 oxyanion hole [active] 557722003946 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722003947 metabolite-proton symporter; Region: 2A0106; TIGR00883 557722003948 putative substrate translocation pore; other site 557722003949 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 557722003950 Domain of unknown function DUF21; Region: DUF21; pfam01595 557722003951 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 557722003952 Transporter associated domain; Region: CorC_HlyC; smart01091 557722003953 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 557722003954 signal recognition particle protein; Provisional; Region: PRK10867 557722003955 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 557722003956 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 557722003957 P loop; other site 557722003958 GTP binding site [chemical binding]; other site 557722003959 Signal peptide binding domain; Region: SRP_SPB; pfam02978 557722003960 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 557722003961 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 557722003962 RimM N-terminal domain; Region: RimM; pfam01782 557722003963 PRC-barrel domain; Region: PRC; pfam05239 557722003964 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 557722003965 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 557722003966 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 557722003967 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 557722003968 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557722003969 TrkA-N domain; Region: TrkA_N; pfam02254 557722003970 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 557722003971 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 557722003972 active site 557722003973 Int/Topo IB signature motif; other site 557722003974 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 557722003975 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 557722003976 dimerization domain [polypeptide binding]; other site 557722003977 dimer interface [polypeptide binding]; other site 557722003978 catalytic residues [active] 557722003979 homoserine dehydrogenase; Provisional; Region: PRK06349 557722003980 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 557722003981 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 557722003982 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 557722003983 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 557722003984 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 557722003985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722003986 catalytic residue [active] 557722003987 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557722003988 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 557722003989 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557722003990 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557722003991 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 557722003992 nucleotide binding site [chemical binding]; other site 557722003993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 557722003994 PspA/IM30 family; Region: PspA_IM30; pfam04012 557722003995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 557722003996 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 557722003997 ATPase involved in DNA repair; Region: DUF3686; pfam12458 557722003998 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 557722003999 linker region; other site 557722004000 AAA domain; Region: AAA_22; pfam13401 557722004001 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722004002 Walker A motif; other site 557722004003 ATP binding site [chemical binding]; other site 557722004004 Walker B motif; other site 557722004005 Catalytic domain of vertebrate phospholipase D6 and similar proteins; Region: PLDc_vPLD6_like; cd09171 557722004006 PLD-like domain; Region: PLDc_2; pfam13091 557722004007 putative active site [active] 557722004008 catalytic site [active] 557722004009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 557722004010 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 557722004011 DHH family; Region: DHH; pfam01368 557722004012 DHHA1 domain; Region: DHHA1; pfam02272 557722004013 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 557722004014 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 557722004015 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 557722004016 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 557722004017 active site 557722004018 Zn binding site [ion binding]; other site 557722004019 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722004020 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 557722004021 active site 557722004022 FMN binding site [chemical binding]; other site 557722004023 substrate binding site [chemical binding]; other site 557722004024 homotetramer interface [polypeptide binding]; other site 557722004025 catalytic residue [active] 557722004026 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722004027 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722004028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722004029 putative substrate translocation pore; other site 557722004030 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722004031 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 557722004032 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557722004033 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722004034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722004035 active site 557722004036 phosphorylation site [posttranslational modification] 557722004037 intermolecular recognition site; other site 557722004038 dimerization interface [polypeptide binding]; other site 557722004039 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 557722004040 DNA binding residues [nucleotide binding] 557722004041 dimerization interface [polypeptide binding]; other site 557722004042 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722004043 Protein of unknown function (DUF533); Region: DUF533; pfam04391 557722004044 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 557722004045 putative metal binding site [ion binding]; other site 557722004046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722004047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722004048 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 557722004049 dimerization interface [polypeptide binding]; other site 557722004050 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 557722004051 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557722004052 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722004053 putative substrate translocation pore; other site 557722004054 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557722004055 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557722004056 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 557722004057 dimerization interface [polypeptide binding]; other site 557722004058 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722004059 dimer interface [polypeptide binding]; other site 557722004060 putative CheW interface [polypeptide binding]; other site 557722004061 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 557722004062 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 557722004063 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722004064 S-adenosylmethionine binding site [chemical binding]; other site 557722004065 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 557722004066 Response regulator receiver domain; Region: Response_reg; pfam00072 557722004067 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722004068 active site 557722004069 phosphorylation site [posttranslational modification] 557722004070 intermolecular recognition site; other site 557722004071 dimerization interface [polypeptide binding]; other site 557722004072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722004073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722004074 metal binding site [ion binding]; metal-binding site 557722004075 active site 557722004076 I-site; other site 557722004077 peptide chain release factor 2; Provisional; Region: PRK08787 557722004078 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557722004079 RF-1 domain; Region: RF-1; pfam00472 557722004080 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 557722004081 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 557722004082 dimer interface [polypeptide binding]; other site 557722004083 putative anticodon binding site; other site 557722004084 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 557722004085 motif 1; other site 557722004086 active site 557722004087 motif 2; other site 557722004088 motif 3; other site 557722004089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 557722004090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3930 557722004091 Uncharacterized conserved protein [Function unknown]; Region: COG2013 557722004092 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 557722004093 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722004094 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722004095 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722004096 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 557722004097 putative ADP-ribose binding site [chemical binding]; other site 557722004098 putative active site [active] 557722004099 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722004100 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722004101 ligand binding site [chemical binding]; other site 557722004102 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 557722004103 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557722004104 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 557722004105 metal-binding site [ion binding] 557722004106 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722004107 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557722004108 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 557722004109 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 557722004110 DNA binding residues [nucleotide binding] 557722004111 dimer interface [polypeptide binding]; other site 557722004112 putative metal binding site [ion binding]; other site 557722004113 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 557722004114 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 557722004115 adenylate kinase; Reviewed; Region: adk; PRK00279 557722004116 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 557722004117 AMP-binding site [chemical binding]; other site 557722004118 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 557722004119 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557722004120 Glycoprotease family; Region: Peptidase_M22; pfam00814 557722004121 Protein of unknown function DUF72; Region: DUF72; cl00777 557722004122 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 557722004123 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 557722004124 tetramer interface [polypeptide binding]; other site 557722004125 active site 557722004126 Mg2+/Mn2+ binding site [ion binding]; other site 557722004127 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 557722004128 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722004129 S-adenosylmethionine binding site [chemical binding]; other site 557722004130 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 557722004131 Cytochrome P450; Region: p450; cl12078 557722004132 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722004133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722004134 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 557722004135 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722004136 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722004137 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722004138 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557722004139 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 557722004140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 557722004141 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 557722004142 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 557722004143 putative acyl-acceptor binding pocket; other site 557722004144 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557722004145 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557722004146 Walker A/P-loop; other site 557722004147 ATP binding site [chemical binding]; other site 557722004148 Q-loop/lid; other site 557722004149 ABC transporter signature motif; other site 557722004150 Walker B; other site 557722004151 D-loop; other site 557722004152 H-loop/switch region; other site 557722004153 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 557722004154 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 557722004155 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 557722004156 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 557722004157 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 557722004158 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557722004159 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 557722004160 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722004161 catalytic residue [active] 557722004162 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 557722004163 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 557722004164 putative trimer interface [polypeptide binding]; other site 557722004165 putative CoA binding site [chemical binding]; other site 557722004166 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557722004167 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 557722004168 ArsC family; Region: ArsC; pfam03960 557722004169 putative catalytic residues [active] 557722004170 LES prophage 3 557722004171 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 557722004172 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 557722004173 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 557722004174 dimer interface [polypeptide binding]; other site 557722004175 active site 557722004176 Int/Topo IB signature motif; other site 557722004177 Excisionase-like protein; Region: Exc; pfam07825 557722004178 Duplication 2a 557722004179 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 557722004180 PLA2_like: Phospholipase A2, a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids (PC or phosphatidylethanolamine), usually in a...; Region: PLA2_like; cl05417 557722004181 primary metal binding site; other site 557722004182 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 557722004183 DNA methylase; Region: N6_N4_Mtase; pfam01555 557722004184 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557722004185 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722004186 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 557722004187 DNA binding residues [nucleotide binding] 557722004188 dimerization interface [polypeptide binding]; other site 557722004189 ParB-like nuclease domain; Region: ParBc; pfam02195 557722004190 KorB domain; Region: KorB; pfam08535 557722004191 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 557722004192 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 557722004193 Predicted transcriptional regulator [Transcription]; Region: COG2932 557722004194 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 557722004195 Catalytic site [active] 557722004196 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 557722004197 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 557722004198 Helix-turn-helix domain; Region: HTH_36; pfam13730 557722004199 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 557722004200 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 557722004201 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 557722004202 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 557722004203 YcfA-like protein; Region: YcfA; pfam07927 557722004204 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 557722004205 Predicted chitinase [General function prediction only]; Region: COG3179 557722004206 catalytic residue [active] 557722004207 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 557722004208 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 557722004209 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 557722004210 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 557722004211 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 557722004212 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 557722004213 oligomer interface [polypeptide binding]; other site 557722004214 active site residues [active] 557722004215 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 557722004216 Duplication 1b 557722004217 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 557722004218 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 557722004219 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 557722004220 Phage-related minor tail protein [Function unknown]; Region: COG5281 557722004221 tape measure domain; Region: tape_meas_nterm; TIGR02675 557722004222 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 557722004223 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 557722004224 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557722004225 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 557722004226 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 557722004227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722004228 homodimer interface [polypeptide binding]; other site 557722004229 catalytic residue [active] 557722004230 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 557722004231 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557722004232 metal binding triad; other site 557722004233 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557722004234 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722004235 Zn2+ binding site [ion binding]; other site 557722004236 Mg2+ binding site [ion binding]; other site 557722004237 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 557722004238 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 557722004239 methionine aminopeptidase; Provisional; Region: PRK08671 557722004240 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 557722004241 active site 557722004242 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 557722004243 rRNA interaction site [nucleotide binding]; other site 557722004244 S8 interaction site; other site 557722004245 putative laminin-1 binding site; other site 557722004246 elongation factor Ts; Provisional; Region: tsf; PRK09377 557722004247 UBA/TS-N domain; Region: UBA; pfam00627 557722004248 Elongation factor TS; Region: EF_TS; pfam00889 557722004249 Elongation factor TS; Region: EF_TS; pfam00889 557722004250 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 557722004251 putative nucleotide binding site [chemical binding]; other site 557722004252 uridine monophosphate binding site [chemical binding]; other site 557722004253 homohexameric interface [polypeptide binding]; other site 557722004254 ribosome recycling factor; Reviewed; Region: frr; PRK00083 557722004255 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 557722004256 hinge region; other site 557722004257 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 557722004258 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 557722004259 catalytic residue [active] 557722004260 putative FPP diphosphate binding site; other site 557722004261 putative FPP binding hydrophobic cleft; other site 557722004262 dimer interface [polypeptide binding]; other site 557722004263 putative IPP diphosphate binding site; other site 557722004264 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 557722004265 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 557722004266 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 557722004267 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 557722004268 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 557722004269 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 557722004270 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 557722004271 zinc metallopeptidase RseP; Provisional; Region: PRK10779 557722004272 active site 557722004273 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 557722004274 protein binding site [polypeptide binding]; other site 557722004275 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 557722004276 protein binding site [polypeptide binding]; other site 557722004277 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 557722004278 putative substrate binding region [chemical binding]; other site 557722004279 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 557722004280 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557722004281 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557722004282 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557722004283 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557722004284 Surface antigen; Region: Bac_surface_Ag; pfam01103 557722004285 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 557722004286 periplasmic chaperone; Provisional; Region: PRK10780 557722004287 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 557722004288 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 557722004289 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 557722004290 trimer interface [polypeptide binding]; other site 557722004291 active site 557722004292 UDP-GlcNAc binding site [chemical binding]; other site 557722004293 lipid binding site [chemical binding]; lipid-binding site 557722004294 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 557722004295 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 557722004296 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 557722004297 active site 557722004298 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 557722004299 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 557722004300 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 557722004301 RNA/DNA hybrid binding site [nucleotide binding]; other site 557722004302 active site 557722004303 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 557722004304 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 557722004305 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 557722004306 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 557722004307 putative active site [active] 557722004308 putative PHP Thumb interface [polypeptide binding]; other site 557722004309 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 557722004310 generic binding surface II; other site 557722004311 generic binding surface I; other site 557722004312 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 557722004313 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 557722004314 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 557722004315 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 557722004316 Ligand Binding Site [chemical binding]; other site 557722004317 TilS substrate binding domain; Region: TilS; pfam09179 557722004318 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 557722004319 CTP synthetase; Validated; Region: pyrG; PRK05380 557722004320 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 557722004321 Catalytic site [active] 557722004322 active site 557722004323 UTP binding site [chemical binding]; other site 557722004324 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 557722004325 active site 557722004326 putative oxyanion hole; other site 557722004327 catalytic triad [active] 557722004328 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 557722004329 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557722004330 enolase; Provisional; Region: eno; PRK00077 557722004331 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 557722004332 dimer interface [polypeptide binding]; other site 557722004333 metal binding site [ion binding]; metal-binding site 557722004334 substrate binding pocket [chemical binding]; other site 557722004335 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 557722004336 Septum formation initiator; Region: DivIC; cl17659 557722004337 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 557722004338 substrate binding site; other site 557722004339 dimer interface; other site 557722004340 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 557722004341 CPxP motif; other site 557722004342 putative inner membrane protein; Provisional; Region: PRK11099 557722004343 Sulphur transport; Region: Sulf_transp; pfam04143 557722004344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722004345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722004346 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 557722004347 putative effector binding pocket; other site 557722004348 putative dimerization interface [polypeptide binding]; other site 557722004349 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 557722004350 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 557722004351 substrate binding site [chemical binding]; other site 557722004352 catalytic Zn binding site [ion binding]; other site 557722004353 NAD binding site [chemical binding]; other site 557722004354 structural Zn binding site [ion binding]; other site 557722004355 dimer interface [polypeptide binding]; other site 557722004356 S-formylglutathione hydrolase; Region: PLN02442 557722004357 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 557722004358 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 557722004359 homotrimer interaction site [polypeptide binding]; other site 557722004360 zinc binding site [ion binding]; other site 557722004361 CDP-binding sites; other site 557722004362 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 557722004363 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 557722004364 Permutation of conserved domain; other site 557722004365 active site 557722004366 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 557722004367 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 557722004368 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 557722004369 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722004370 S-adenosylmethionine binding site [chemical binding]; other site 557722004371 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722004372 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722004373 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 557722004374 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557722004375 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722004376 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557722004377 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 557722004378 DNA binding residues [nucleotide binding] 557722004379 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557722004380 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 557722004381 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 557722004382 MutS domain I; Region: MutS_I; pfam01624 557722004383 MutS domain II; Region: MutS_II; pfam05188 557722004384 MutS domain III; Region: MutS_III; pfam05192 557722004385 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 557722004386 Walker A/P-loop; other site 557722004387 ATP binding site [chemical binding]; other site 557722004388 Q-loop/lid; other site 557722004389 ABC transporter signature motif; other site 557722004390 Walker B; other site 557722004391 D-loop; other site 557722004392 H-loop/switch region; other site 557722004393 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 557722004394 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 557722004395 recombinase A; Provisional; Region: recA; PRK09354 557722004396 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 557722004397 hexamer interface [polypeptide binding]; other site 557722004398 Walker A motif; other site 557722004399 ATP binding site [chemical binding]; other site 557722004400 Walker B motif; other site 557722004401 recombination regulator RecX; Reviewed; Region: recX; PRK00117 557722004402 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 557722004403 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 557722004404 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557722004405 Beta-Casp domain; Region: Beta-Casp; smart01027 557722004406 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 557722004407 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 557722004408 XFP N-terminal domain; Region: XFP_N; pfam09364 557722004409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 557722004410 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 557722004411 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557722004412 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722004413 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557722004414 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722004415 dimer interface [polypeptide binding]; other site 557722004416 conserved gate region; other site 557722004417 putative PBP binding loops; other site 557722004418 ABC-ATPase subunit interface; other site 557722004419 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557722004420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722004421 dimer interface [polypeptide binding]; other site 557722004422 conserved gate region; other site 557722004423 putative PBP binding loops; other site 557722004424 ABC-ATPase subunit interface; other site 557722004425 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557722004426 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722004427 Walker A/P-loop; other site 557722004428 ATP binding site [chemical binding]; other site 557722004429 Q-loop/lid; other site 557722004430 ABC transporter signature motif; other site 557722004431 Walker B; other site 557722004432 D-loop; other site 557722004433 H-loop/switch region; other site 557722004434 TOBE domain; Region: TOBE_2; pfam08402 557722004435 Uncharacterized conserved protein [Function unknown]; Region: COG3148 557722004436 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557722004437 EamA-like transporter family; Region: EamA; pfam00892 557722004438 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722004439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722004440 active site 557722004441 phosphorylation site [posttranslational modification] 557722004442 intermolecular recognition site; other site 557722004443 dimerization interface [polypeptide binding]; other site 557722004444 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 557722004445 DNA binding residues [nucleotide binding] 557722004446 dimerization interface [polypeptide binding]; other site 557722004447 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 557722004448 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 557722004449 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 557722004450 active site 557722004451 FMN binding site [chemical binding]; other site 557722004452 substrate binding site [chemical binding]; other site 557722004453 3Fe-4S cluster binding site [ion binding]; other site 557722004454 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 557722004455 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 557722004456 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722004457 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 557722004458 DNA binding residues [nucleotide binding] 557722004459 dimerization interface [polypeptide binding]; other site 557722004460 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557722004461 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 557722004462 putative active site [active] 557722004463 catalytic triad [active] 557722004464 putative dimer interface [polypeptide binding]; other site 557722004465 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557722004466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722004467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722004468 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 557722004469 putative dimerization interface [polypeptide binding]; other site 557722004470 putative substrate binding pocket [chemical binding]; other site 557722004471 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722004472 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 557722004473 active site 557722004474 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557722004475 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557722004476 enoyl-CoA hydratase; Provisional; Region: PRK08138 557722004477 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 557722004478 substrate binding site [chemical binding]; other site 557722004479 oxyanion hole (OAH) forming residues; other site 557722004480 trimer interface [polypeptide binding]; other site 557722004481 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 557722004482 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557722004483 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557722004484 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557722004485 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 557722004486 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 557722004487 dimer interface [polypeptide binding]; other site 557722004488 active site 557722004489 outer membrane porin, OprD family; Region: OprD; pfam03573 557722004490 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 557722004491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722004492 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 557722004493 putative dimerization interface [polypeptide binding]; other site 557722004494 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722004495 GlpM protein; Region: GlpM; pfam06942 557722004496 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 557722004497 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 557722004498 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 557722004499 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557722004500 glycerol kinase; Provisional; Region: glpK; PRK00047 557722004501 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 557722004502 N- and C-terminal domain interface [polypeptide binding]; other site 557722004503 active site 557722004504 MgATP binding site [chemical binding]; other site 557722004505 catalytic site [active] 557722004506 metal binding site [ion binding]; metal-binding site 557722004507 glycerol binding site [chemical binding]; other site 557722004508 homotetramer interface [polypeptide binding]; other site 557722004509 homodimer interface [polypeptide binding]; other site 557722004510 FBP binding site [chemical binding]; other site 557722004511 protein IIAGlc interface [polypeptide binding]; other site 557722004512 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 557722004513 amphipathic channel; other site 557722004514 Asn-Pro-Ala signature motifs; other site 557722004515 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 557722004516 putative deacylase active site [active] 557722004517 glycerol kinase; Region: glycerol_kin; TIGR01311 557722004518 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 557722004519 N- and C-terminal domain interface [polypeptide binding]; other site 557722004520 active site 557722004521 MgATP binding site [chemical binding]; other site 557722004522 catalytic site [active] 557722004523 metal binding site [ion binding]; metal-binding site 557722004524 glycerol binding site [chemical binding]; other site 557722004525 homotetramer interface [polypeptide binding]; other site 557722004526 homodimer interface [polypeptide binding]; other site 557722004527 FBP binding site [chemical binding]; other site 557722004528 protein IIAGlc interface [polypeptide binding]; other site 557722004529 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 557722004530 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 557722004531 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 557722004532 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722004533 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 557722004534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722004535 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 557722004536 putative substrate translocation pore; other site 557722004537 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722004538 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722004539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722004540 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557722004541 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 557722004542 tetrameric interface [polypeptide binding]; other site 557722004543 NAD binding site [chemical binding]; other site 557722004544 catalytic residues [active] 557722004545 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557722004546 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 557722004547 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 557722004548 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 557722004549 acyl-activating enzyme (AAE) consensus motif; other site 557722004550 putative AMP binding site [chemical binding]; other site 557722004551 putative active site [active] 557722004552 putative CoA binding site [chemical binding]; other site 557722004553 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 557722004554 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 557722004555 putative NAD(P) binding site [chemical binding]; other site 557722004556 dimer interface [polypeptide binding]; other site 557722004557 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557722004558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722004559 transcriptional activator TtdR; Provisional; Region: PRK09801 557722004560 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 557722004561 putative effector binding pocket; other site 557722004562 dimerization interface [polypeptide binding]; other site 557722004563 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557722004564 active site 557722004565 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 557722004566 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557722004567 DNA binding site [nucleotide binding] 557722004568 domain linker motif; other site 557722004569 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 557722004570 dimerization interface [polypeptide binding]; other site 557722004571 ligand binding site [chemical binding]; other site 557722004572 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 557722004573 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 557722004574 active site 557722004575 phosphorylation site [posttranslational modification] 557722004576 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 557722004577 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 557722004578 dimerization domain swap beta strand [polypeptide binding]; other site 557722004579 regulatory protein interface [polypeptide binding]; other site 557722004580 active site 557722004581 regulatory phosphorylation site [posttranslational modification]; other site 557722004582 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557722004583 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557722004584 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557722004585 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557722004586 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 557722004587 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 557722004588 putative substrate binding site [chemical binding]; other site 557722004589 putative ATP binding site [chemical binding]; other site 557722004590 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 557722004591 active site 557722004592 P-loop; other site 557722004593 phosphorylation site [posttranslational modification] 557722004594 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 557722004595 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 557722004596 active site 557722004597 P-loop; other site 557722004598 phosphorylation site [posttranslational modification] 557722004599 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 557722004600 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 557722004601 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557722004602 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557722004603 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 557722004604 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 557722004605 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 557722004606 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 557722004607 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 557722004608 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 557722004609 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 557722004610 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 557722004611 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 557722004612 active site 557722004613 substrate binding site [chemical binding]; other site 557722004614 cosubstrate binding site; other site 557722004615 catalytic site [active] 557722004616 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 557722004617 active site 557722004618 hexamer interface [polypeptide binding]; other site 557722004619 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 557722004620 NAD binding site [chemical binding]; other site 557722004621 substrate binding site [chemical binding]; other site 557722004622 active site 557722004623 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 557722004624 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 557722004625 Ligand binding site; other site 557722004626 Putative Catalytic site; other site 557722004627 DXD motif; other site 557722004628 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 557722004629 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 557722004630 inhibitor-cofactor binding pocket; inhibition site 557722004631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722004632 catalytic residue [active] 557722004633 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 557722004634 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 557722004635 Substrate binding site; other site 557722004636 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 557722004637 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 557722004638 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 557722004639 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 557722004640 active site 557722004641 Right handed beta helix region; Region: Beta_helix; pfam13229 557722004642 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 557722004643 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 557722004644 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722004645 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722004646 Sel1-like repeats; Region: SEL1; smart00671 557722004647 PilZ domain; Region: PilZ; pfam07238 557722004648 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722004649 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557722004650 active site 557722004651 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 557722004652 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 557722004653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722004654 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557722004655 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 557722004656 hypothetical protein; Validated; Region: PRK02101 557722004657 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557722004658 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557722004659 Walker A/P-loop; other site 557722004660 ATP binding site [chemical binding]; other site 557722004661 Q-loop/lid; other site 557722004662 ABC transporter signature motif; other site 557722004663 Walker B; other site 557722004664 D-loop; other site 557722004665 H-loop/switch region; other site 557722004666 TOBE domain; Region: TOBE_2; pfam08402 557722004667 ornithine carbamoyltransferase; Provisional; Region: PRK00779 557722004668 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557722004669 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557722004670 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 557722004671 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 557722004672 catalytic triad [active] 557722004673 putative active site [active] 557722004674 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 557722004675 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 557722004676 Autotransporter beta-domain; Region: Autotransporter; smart00869 557722004677 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 557722004678 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 557722004679 putative [Fe4-S4] binding site [ion binding]; other site 557722004680 putative molybdopterin cofactor binding site [chemical binding]; other site 557722004681 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 557722004682 putative molybdopterin cofactor binding site; other site 557722004683 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 557722004684 putative GSH binding site [chemical binding]; other site 557722004685 catalytic residues [active] 557722004686 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 557722004687 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 557722004688 heme binding site [chemical binding]; other site 557722004689 ferroxidase pore; other site 557722004690 ferroxidase diiron center [ion binding]; other site 557722004691 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 557722004692 peroxidase; Provisional; Region: PRK15000 557722004693 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 557722004694 dimer interface [polypeptide binding]; other site 557722004695 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557722004696 catalytic triad [active] 557722004697 peroxidatic and resolving cysteines [active] 557722004698 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 557722004699 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 557722004700 dimer interface [polypeptide binding]; other site 557722004701 catalytic site [active] 557722004702 putative active site [active] 557722004703 putative substrate binding site [chemical binding]; other site 557722004704 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 557722004705 active site 557722004706 substrate binding pocket [chemical binding]; other site 557722004707 dimer interface [polypeptide binding]; other site 557722004708 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722004709 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722004710 ligand binding site [chemical binding]; other site 557722004711 argininosuccinate synthase; Provisional; Region: PRK13820 557722004712 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 557722004713 ANP binding site [chemical binding]; other site 557722004714 Substrate Binding Site II [chemical binding]; other site 557722004715 Substrate Binding Site I [chemical binding]; other site 557722004716 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722004717 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 557722004718 dimer interface [polypeptide binding]; other site 557722004719 active site 557722004720 metal binding site [ion binding]; metal-binding site 557722004721 glutathione binding site [chemical binding]; other site 557722004722 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722004723 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722004724 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722004725 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557722004726 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557722004727 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 557722004728 metal-binding site [ion binding] 557722004729 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 557722004730 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 557722004731 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 557722004732 tetramer interface [polypeptide binding]; other site 557722004733 active site 557722004734 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 557722004735 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 557722004736 tetramer interface [polypeptide binding]; other site 557722004737 active site 557722004738 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722004739 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722004740 S-adenosylmethionine binding site [chemical binding]; other site 557722004741 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 557722004742 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557722004743 minor groove reading motif; other site 557722004744 helix-hairpin-helix signature motif; other site 557722004745 substrate binding pocket [chemical binding]; other site 557722004746 active site 557722004747 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 557722004748 electron transport complex RsxE subunit; Provisional; Region: PRK12405 557722004749 Predicted NADH:ubiquinone oxidoreductase, subunit RnfG [Energy production and conversion]; Region: RnfG; COG4659 557722004750 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 557722004751 electron transport complex protein RnfC; Provisional; Region: PRK05035 557722004752 SLBB domain; Region: SLBB; pfam10531 557722004753 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 557722004754 electron transport complex protein RnfB; Provisional; Region: PRK05113 557722004755 Putative Fe-S cluster; Region: FeS; pfam04060 557722004756 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 557722004757 electron transport complex protein RsxA; Provisional; Region: PRK05151 557722004758 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 557722004759 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 557722004760 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 557722004761 active site 557722004762 HIGH motif; other site 557722004763 KMSKS motif; other site 557722004764 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 557722004765 tRNA binding surface [nucleotide binding]; other site 557722004766 anticodon binding site; other site 557722004767 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 557722004768 putative tRNA-binding site [nucleotide binding]; other site 557722004769 dimer interface [polypeptide binding]; other site 557722004770 antiporter inner membrane protein; Provisional; Region: PRK11670 557722004771 Domain of unknown function DUF59; Region: DUF59; pfam01883 557722004772 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 557722004773 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557722004774 trimer interface [polypeptide binding]; other site 557722004775 active site 557722004776 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722004777 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 557722004778 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 557722004779 homodimer interface [polypeptide binding]; other site 557722004780 active site 557722004781 TDP-binding site; other site 557722004782 acceptor substrate-binding pocket; other site 557722004783 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 557722004784 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557722004785 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 557722004786 DNA binding residues [nucleotide binding] 557722004787 dimerization interface [polypeptide binding]; other site 557722004788 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 557722004789 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557722004790 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 557722004791 substrate binding pocket [chemical binding]; other site 557722004792 membrane-bound complex binding site; other site 557722004793 hinge residues; other site 557722004794 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557722004795 Predicted permeases [General function prediction only]; Region: RarD; COG2962 557722004796 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 557722004797 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557722004798 NlpC/P60 family; Region: NLPC_P60; pfam00877 557722004799 malate dehydrogenase; Provisional; Region: PRK13529 557722004800 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557722004801 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 557722004802 NAD(P) binding site [chemical binding]; other site 557722004803 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 557722004804 nudix motif; other site 557722004805 RibD C-terminal domain; Region: RibD_C; cl17279 557722004806 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 557722004807 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557722004808 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722004809 benzoate transport; Region: 2A0115; TIGR00895 557722004810 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722004811 putative substrate translocation pore; other site 557722004812 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722004813 helicase 45; Provisional; Region: PTZ00424 557722004814 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 557722004815 ATP binding site [chemical binding]; other site 557722004816 Mg++ binding site [ion binding]; other site 557722004817 motif III; other site 557722004818 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 557722004819 nucleotide binding region [chemical binding]; other site 557722004820 ATP-binding site [chemical binding]; other site 557722004821 Transmembrane secretion effector; Region: MFS_3; pfam05977 557722004822 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722004823 putative substrate translocation pore; other site 557722004824 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 557722004825 LES prophage 4 557722004826 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 557722004827 non-specific DNA binding site [nucleotide binding]; other site 557722004828 salt bridge; other site 557722004829 sequence-specific DNA binding site [nucleotide binding]; other site 557722004830 Predicted transcriptional regulator [Transcription]; Region: COG2932 557722004831 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 557722004832 Catalytic site [active] 557722004833 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 557722004834 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 557722004835 Integrase core domain; Region: rve; pfam00665 557722004836 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 557722004837 AAA domain; Region: AAA_22; pfam13401 557722004838 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 557722004839 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 557722004840 Mor transcription activator family; Region: Mor; cl02360 557722004841 virion protein; Provisional; Region: V; PHA02564 557722004842 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 557722004843 Helix-turn-helix domain; Region: HTH_28; pfam13518 557722004844 Herpesvirus UL33-like protein; Region: Herpes_UL33; cl17329 557722004845 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 557722004846 Protein of unknown function (DUF935); Region: DUF935; pfam06074 557722004847 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 557722004848 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 557722004849 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 557722004850 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 557722004851 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 557722004852 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 557722004853 Phage-related minor tail protein [Function unknown]; Region: COG5281 557722004854 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 557722004855 Phage-related minor tail protein [Function unknown]; Region: COG5281 557722004856 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 557722004857 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 557722004858 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 557722004859 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 557722004860 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 557722004861 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 557722004862 Putative phage tail protein; Region: Phage-tail_3; pfam13550 557722004863 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 557722004864 hypothetical protein; Provisional; Region: PRK00304 557722004865 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 557722004866 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 557722004867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 557722004868 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 557722004869 dimer interface [polypeptide binding]; other site 557722004870 phosphorylation site [posttranslational modification] 557722004871 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722004872 ATP binding site [chemical binding]; other site 557722004873 Mg2+ binding site [ion binding]; other site 557722004874 G-X-G motif; other site 557722004875 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722004876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722004877 active site 557722004878 phosphorylation site [posttranslational modification] 557722004879 intermolecular recognition site; other site 557722004880 dimerization interface [polypeptide binding]; other site 557722004881 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 557722004882 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 557722004883 putative oligomer interface [polypeptide binding]; other site 557722004884 putative active site [active] 557722004885 metal binding site [ion binding]; metal-binding site 557722004886 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 557722004887 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722004888 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722004889 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 557722004890 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 557722004891 active site 557722004892 dimer interface [polypeptide binding]; other site 557722004893 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 557722004894 Ligand Binding Site [chemical binding]; other site 557722004895 Molecular Tunnel; other site 557722004896 MarR family; Region: MarR_2; cl17246 557722004897 Predicted permeases [General function prediction only]; Region: COG0730 557722004898 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 557722004899 Uncharacterized conserved protein [Function unknown]; Region: COG4121 557722004900 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 557722004901 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 557722004902 Uncharacterized conserved protein [Function unknown]; Region: COG2326 557722004903 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 557722004904 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 557722004905 dimer interface [polypeptide binding]; other site 557722004906 active site 557722004907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 557722004908 malate:quinone oxidoreductase; Validated; Region: PRK05257 557722004909 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 557722004910 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 557722004911 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 557722004912 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 557722004913 dimer interface [polypeptide binding]; other site 557722004914 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557722004915 catalytic triad [active] 557722004916 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557722004917 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 557722004918 substrate binding pocket [chemical binding]; other site 557722004919 membrane-bound complex binding site; other site 557722004920 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722004921 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722004922 dimer interface [polypeptide binding]; other site 557722004923 conserved gate region; other site 557722004924 putative PBP binding loops; other site 557722004925 ABC-ATPase subunit interface; other site 557722004926 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 557722004927 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557722004928 Walker A/P-loop; other site 557722004929 ATP binding site [chemical binding]; other site 557722004930 Q-loop/lid; other site 557722004931 ABC transporter signature motif; other site 557722004932 Walker B; other site 557722004933 D-loop; other site 557722004934 H-loop/switch region; other site 557722004935 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 557722004936 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722004937 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557722004938 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 557722004939 substrate binding pocket [chemical binding]; other site 557722004940 membrane-bound complex binding site; other site 557722004941 hinge residues; other site 557722004942 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 557722004943 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 557722004944 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 557722004945 active site 557722004946 dimer interface [polypeptide binding]; other site 557722004947 non-prolyl cis peptide bond; other site 557722004948 insertion regions; other site 557722004949 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722004950 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722004951 dimer interface [polypeptide binding]; other site 557722004952 conserved gate region; other site 557722004953 putative PBP binding loops; other site 557722004954 ABC-ATPase subunit interface; other site 557722004955 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 557722004956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722004957 Walker A/P-loop; other site 557722004958 ATP binding site [chemical binding]; other site 557722004959 Q-loop/lid; other site 557722004960 ABC transporter signature motif; other site 557722004961 Walker B; other site 557722004962 D-loop; other site 557722004963 H-loop/switch region; other site 557722004964 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 557722004965 HopJ type III effector protein; Region: HopJ; pfam08888 557722004966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 557722004967 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 557722004968 homooctamer interface [polypeptide binding]; other site 557722004969 active site 557722004970 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 557722004971 homodecamer interface [polypeptide binding]; other site 557722004972 GTP cyclohydrolase I; Provisional; Region: PLN03044 557722004973 active site 557722004974 putative catalytic site residues [active] 557722004975 zinc binding site [ion binding]; other site 557722004976 GTP-CH-I/GFRP interaction surface; other site 557722004977 dihydromonapterin reductase; Provisional; Region: PRK06483 557722004978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722004979 NAD(P) binding site [chemical binding]; other site 557722004980 active site 557722004981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 557722004982 flavodoxin; Provisional; Region: PRK05723 557722004983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722004984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722004985 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 557722004986 putative dimerization interface [polypeptide binding]; other site 557722004987 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 557722004988 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 557722004989 aldolase II superfamily protein; Provisional; Region: PRK07044 557722004990 intersubunit interface [polypeptide binding]; other site 557722004991 active site 557722004992 Zn2+ binding site [ion binding]; other site 557722004993 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722004994 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 557722004995 homodimer interface [polypeptide binding]; other site 557722004996 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557722004997 NAD binding site [chemical binding]; other site 557722004998 active site 557722004999 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 557722005000 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 557722005001 substrate binding site [chemical binding]; other site 557722005002 oxyanion hole (OAH) forming residues; other site 557722005003 trimer interface [polypeptide binding]; other site 557722005004 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 557722005005 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722005006 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722005007 SnoaL-like domain; Region: SnoaL_2; pfam12680 557722005008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722005009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722005010 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 557722005011 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 557722005012 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 557722005013 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 557722005014 DNA binding residues [nucleotide binding] 557722005015 dimerization interface [polypeptide binding]; other site 557722005016 Uncharacterized conserved protein [Function unknown]; Region: COG2912 557722005017 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 557722005018 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 557722005019 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 557722005020 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 557722005021 NAD binding site [chemical binding]; other site 557722005022 Phe binding site; other site 557722005023 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 557722005024 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 557722005025 TPP-binding site [chemical binding]; other site 557722005026 tetramer interface [polypeptide binding]; other site 557722005027 heterodimer interface [polypeptide binding]; other site 557722005028 phosphorylation loop region [posttranslational modification] 557722005029 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 557722005030 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 557722005031 alpha subunit interface [polypeptide binding]; other site 557722005032 TPP binding site [chemical binding]; other site 557722005033 heterodimer interface [polypeptide binding]; other site 557722005034 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557722005035 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 557722005036 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 557722005037 E3 interaction surface; other site 557722005038 lipoyl attachment site [posttranslational modification]; other site 557722005039 e3 binding domain; Region: E3_binding; pfam02817 557722005040 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557722005041 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 557722005042 DNA damage-inducible gene in SOS regulon, dependent on cyclic AMP and H-NS , pqiA [General function prediction only]; Region: COG3141 557722005043 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 557722005044 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 557722005045 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722005046 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 557722005047 DNA binding residues [nucleotide binding] 557722005048 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722005049 FecR protein; Region: FecR; pfam04773 557722005050 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722005051 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 557722005052 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 557722005053 N-terminal plug; other site 557722005054 ligand-binding site [chemical binding]; other site 557722005055 Heme-binding protein A (HasA); Region: HasA; pfam06438 557722005056 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 557722005057 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 557722005058 Walker A/P-loop; other site 557722005059 ATP binding site [chemical binding]; other site 557722005060 Q-loop/lid; other site 557722005061 ABC transporter signature motif; other site 557722005062 Walker B; other site 557722005063 D-loop; other site 557722005064 H-loop/switch region; other site 557722005065 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557722005066 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722005067 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722005068 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 557722005069 Predicted membrane protein [Function unknown]; Region: COG3223 557722005070 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722005071 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722005072 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557722005073 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 557722005074 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 557722005075 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557722005076 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 557722005077 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 557722005078 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 557722005079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722005080 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 557722005081 putative dimerization interface [polypeptide binding]; other site 557722005082 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557722005083 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 557722005084 FAD binding pocket [chemical binding]; other site 557722005085 FAD binding motif [chemical binding]; other site 557722005086 phosphate binding motif [ion binding]; other site 557722005087 beta-alpha-beta structure motif; other site 557722005088 NAD binding pocket [chemical binding]; other site 557722005089 NosL; Region: NosL; cl01769 557722005090 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 557722005091 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 557722005092 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 557722005093 nitrous-oxide reductase; Validated; Region: PRK02888 557722005094 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 557722005095 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 557722005096 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 557722005097 4Fe-4S binding domain; Region: Fer4_5; pfam12801 557722005098 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 557722005099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722005100 active site 557722005101 metal binding site [ion binding]; metal-binding site 557722005102 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557722005103 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 557722005104 homodimer interaction site [polypeptide binding]; other site 557722005105 cofactor binding site; other site 557722005106 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 557722005107 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 557722005108 NADP binding site [chemical binding]; other site 557722005109 active site 557722005110 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 557722005111 Arc-like DNA binding domain; Region: Arc; pfam03869 557722005112 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 557722005113 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 557722005114 Walker A/P-loop; other site 557722005115 ATP binding site [chemical binding]; other site 557722005116 Q-loop/lid; other site 557722005117 ABC transporter signature motif; other site 557722005118 Walker B; other site 557722005119 D-loop; other site 557722005120 H-loop/switch region; other site 557722005121 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 557722005122 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 557722005123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722005124 dimer interface [polypeptide binding]; other site 557722005125 conserved gate region; other site 557722005126 ABC-ATPase subunit interface; other site 557722005127 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557722005128 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722005129 DNA-binding site [nucleotide binding]; DNA binding site 557722005130 UTRA domain; Region: UTRA; pfam07702 557722005131 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 557722005132 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 557722005133 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 557722005134 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 557722005135 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 557722005136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722005137 Walker A/P-loop; other site 557722005138 ATP binding site [chemical binding]; other site 557722005139 Q-loop/lid; other site 557722005140 ABC transporter signature motif; other site 557722005141 Walker B; other site 557722005142 D-loop; other site 557722005143 H-loop/switch region; other site 557722005144 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557722005145 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 557722005146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722005147 Walker A/P-loop; other site 557722005148 ATP binding site [chemical binding]; other site 557722005149 Q-loop/lid; other site 557722005150 ABC transporter signature motif; other site 557722005151 Walker B; other site 557722005152 D-loop; other site 557722005153 H-loop/switch region; other site 557722005154 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 557722005155 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 557722005156 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 557722005157 active site 557722005158 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 557722005159 AAA domain; Region: AAA_18; pfam13238 557722005160 active site 557722005161 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 557722005162 putative hydrolase; Provisional; Region: PRK02113 557722005163 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 557722005164 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 557722005165 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722005166 Coenzyme A binding pocket [chemical binding]; other site 557722005167 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557722005168 RHS Repeat; Region: RHS_repeat; pfam05593 557722005169 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557722005170 RHS Repeat; Region: RHS_repeat; pfam05593 557722005171 RHS Repeat; Region: RHS_repeat; pfam05593 557722005172 RHS Repeat; Region: RHS_repeat; pfam05593 557722005173 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 557722005174 RHS Repeat; Region: RHS_repeat; pfam05593 557722005175 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557722005176 HTH-like domain; Region: HTH_21; pfam13276 557722005177 Integrase core domain; Region: rve; pfam00665 557722005178 DDE domain; Region: DDE_Tnp_IS240; pfam13610 557722005179 Integrase core domain; Region: rve_3; pfam13683 557722005180 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 557722005181 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 557722005182 multimer interface [polypeptide binding]; other site 557722005183 active site 557722005184 catalytic triad [active] 557722005185 dimer interface [polypeptide binding]; other site 557722005186 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 557722005187 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722005188 Walker A motif; other site 557722005189 ATP binding site [chemical binding]; other site 557722005190 Walker B motif; other site 557722005191 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557722005192 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 557722005193 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557722005194 ligand binding site [chemical binding]; other site 557722005195 regulator interaction site; other site 557722005196 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 557722005197 ANTAR domain; Region: ANTAR; pfam03861 557722005198 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 557722005199 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 557722005200 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557722005201 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722005202 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722005203 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 557722005204 EamA-like transporter family; Region: EamA; cl17759 557722005205 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 557722005206 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 557722005207 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722005208 catalytic residue [active] 557722005209 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557722005210 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722005211 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722005212 putative substrate translocation pore; other site 557722005213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3222 557722005214 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 557722005215 Flagellar regulator YcgR; Region: YcgR; pfam07317 557722005216 PilZ domain; Region: PilZ; pfam07238 557722005217 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 557722005218 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 557722005219 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 557722005220 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 557722005221 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 557722005222 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 557722005223 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722005224 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722005225 active site 557722005226 phosphorylation site [posttranslational modification] 557722005227 intermolecular recognition site; other site 557722005228 dimerization interface [polypeptide binding]; other site 557722005229 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 557722005230 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 557722005231 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722005232 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 557722005233 anti sigma factor interaction site; other site 557722005234 regulatory phosphorylation site [posttranslational modification]; other site 557722005235 Response regulator receiver domain; Region: Response_reg; pfam00072 557722005236 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722005237 active site 557722005238 phosphorylation site [posttranslational modification] 557722005239 intermolecular recognition site; other site 557722005240 dimerization interface [polypeptide binding]; other site 557722005241 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 557722005242 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 557722005243 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 557722005244 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 557722005245 putative binding surface; other site 557722005246 active site 557722005247 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 557722005248 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 557722005249 ATP binding site [chemical binding]; other site 557722005250 putative Mg++ binding site [ion binding]; other site 557722005251 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 557722005252 nucleotide binding region [chemical binding]; other site 557722005253 ATP-binding site [chemical binding]; other site 557722005254 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 557722005255 HRDC domain; Region: HRDC; pfam00570 557722005256 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722005257 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722005258 metal binding site [ion binding]; metal-binding site 557722005259 active site 557722005260 I-site; other site 557722005261 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 557722005262 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557722005263 MarR family; Region: MarR_2; pfam12802 557722005264 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 557722005265 FimV N-terminal domain; Region: FimV_core; TIGR03505 557722005266 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 557722005267 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 557722005268 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 557722005269 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 557722005270 active site 557722005271 nucleophile elbow; other site 557722005272 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 557722005273 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 557722005274 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557722005275 Surface antigen; Region: Bac_surface_Ag; pfam01103 557722005276 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 557722005277 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 557722005278 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 557722005279 NADP binding site [chemical binding]; other site 557722005280 homopentamer interface [polypeptide binding]; other site 557722005281 substrate binding site [chemical binding]; other site 557722005282 active site 557722005283 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557722005284 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722005285 putative substrate translocation pore; other site 557722005286 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722005287 S-adenosylmethionine binding site [chemical binding]; other site 557722005288 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 557722005289 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 557722005290 dimer interface [polypeptide binding]; other site 557722005291 active site 557722005292 CoA binding pocket [chemical binding]; other site 557722005293 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 557722005294 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 557722005295 Cytochrome P450; Region: p450; cl12078 557722005296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722005297 short chain dehydrogenase; Provisional; Region: PRK06914 557722005298 NAD(P) binding site [chemical binding]; other site 557722005299 active site 557722005300 Condensation domain; Region: Condensation; pfam00668 557722005301 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 557722005302 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 557722005303 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557722005304 Condensation domain; Region: Condensation; pfam00668 557722005305 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722005306 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722005307 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722005308 acyl-activating enzyme (AAE) consensus motif; other site 557722005309 AMP binding site [chemical binding]; other site 557722005310 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722005311 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 557722005312 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722005313 acyl-activating enzyme (AAE) consensus motif; other site 557722005314 AMP binding site [chemical binding]; other site 557722005315 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722005316 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 557722005317 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 557722005318 oligomer interface [polypeptide binding]; other site 557722005319 active site residues [active] 557722005320 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557722005321 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557722005322 short chain dehydrogenase; Validated; Region: PRK05855 557722005323 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722005324 classical (c) SDRs; Region: SDR_c; cd05233 557722005325 NAD(P) binding site [chemical binding]; other site 557722005326 active site 557722005327 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 557722005328 active site 557722005329 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 557722005330 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 557722005331 DNA binding residues [nucleotide binding] 557722005332 putative dimer interface [polypeptide binding]; other site 557722005333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722005334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722005335 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 557722005336 putative substrate binding pocket [chemical binding]; other site 557722005337 putative dimerization interface [polypeptide binding]; other site 557722005338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 557722005339 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 557722005340 Phosphoesterase family; Region: Phosphoesterase; pfam04185 557722005341 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557722005342 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557722005343 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 557722005344 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 557722005345 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 557722005346 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 557722005347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722005348 Walker A/P-loop; other site 557722005349 ATP binding site [chemical binding]; other site 557722005350 Q-loop/lid; other site 557722005351 ABC transporter signature motif; other site 557722005352 Walker B; other site 557722005353 D-loop; other site 557722005354 H-loop/switch region; other site 557722005355 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 557722005356 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 557722005357 substrate binding pocket [chemical binding]; other site 557722005358 membrane-bound complex binding site; other site 557722005359 hinge residues; other site 557722005360 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 557722005361 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557722005362 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 557722005363 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 557722005364 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 557722005365 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722005366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722005367 metal binding site [ion binding]; metal-binding site 557722005368 active site 557722005369 I-site; other site 557722005370 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 557722005371 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 557722005372 Sulfatase; Region: Sulfatase; pfam00884 557722005373 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 557722005374 Ligand Binding Site [chemical binding]; other site 557722005375 ATP-dependent helicase HepA; Validated; Region: PRK04914 557722005376 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 557722005377 ATP binding site [chemical binding]; other site 557722005378 putative Mg++ binding site [ion binding]; other site 557722005379 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 557722005380 nucleotide binding region [chemical binding]; other site 557722005381 ATP-binding site [chemical binding]; other site 557722005382 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 557722005383 Fusaric acid resistance protein family; Region: FUSC; pfam04632 557722005384 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 557722005385 HlyD family secretion protein; Region: HlyD; pfam00529 557722005386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722005387 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722005388 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557722005389 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 557722005390 (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 557722005391 dimer interaction site [polypeptide binding]; other site 557722005392 substrate-binding tunnel; other site 557722005393 active site 557722005394 catalytic site [active] 557722005395 substrate binding site [chemical binding]; other site 557722005396 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 557722005397 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722005398 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722005399 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 557722005400 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 557722005401 acyl-activating enzyme (AAE) consensus motif; other site 557722005402 putative AMP binding site [chemical binding]; other site 557722005403 putative active site [active] 557722005404 putative CoA binding site [chemical binding]; other site 557722005405 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 557722005406 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 557722005407 acyl-activating enzyme (AAE) consensus motif; other site 557722005408 putative AMP binding site [chemical binding]; other site 557722005409 putative active site [active] 557722005410 putative CoA binding site [chemical binding]; other site 557722005411 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 557722005412 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 557722005413 ATP binding site [chemical binding]; other site 557722005414 putative Mg++ binding site [ion binding]; other site 557722005415 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 557722005416 nucleotide binding region [chemical binding]; other site 557722005417 ATP-binding site [chemical binding]; other site 557722005418 Helicase associated domain (HA2); Region: HA2; pfam04408 557722005419 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 557722005420 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 557722005421 alkaline phosphatase; Provisional; Region: PRK10518 557722005422 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 557722005423 active site 557722005424 dimer interface [polypeptide binding]; other site 557722005425 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 557722005426 HIT family signature motif; other site 557722005427 catalytic residue [active] 557722005428 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557722005429 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722005430 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722005431 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557722005432 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 557722005433 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 557722005434 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 557722005435 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 557722005436 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 557722005437 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 557722005438 Isochorismatase family; Region: Isochorismatase; pfam00857 557722005439 catalytic triad [active] 557722005440 conserved cis-peptide bond; other site 557722005441 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 557722005442 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 557722005443 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 557722005444 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 557722005445 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 557722005446 dimer interface [polypeptide binding]; other site 557722005447 active site 557722005448 CoA binding pocket [chemical binding]; other site 557722005449 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 557722005450 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722005451 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 557722005452 DNA binding residues [nucleotide binding] 557722005453 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 557722005454 Protein of unknown function (DUF692); Region: DUF692; pfam05114 557722005455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 557722005456 Predicted membrane protein [Function unknown]; Region: COG2259 557722005457 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 557722005458 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 557722005459 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 557722005460 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 557722005461 short chain dehydrogenase; Provisional; Region: PRK05650 557722005462 classical (c) SDRs; Region: SDR_c; cd05233 557722005463 NAD(P) binding site [chemical binding]; other site 557722005464 active site 557722005465 Uncharacterized conserved protein [Function unknown]; Region: COG1742 557722005466 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 557722005467 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 557722005468 ATP binding site [chemical binding]; other site 557722005469 putative Mg++ binding site [ion binding]; other site 557722005470 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 557722005471 nucleotide binding region [chemical binding]; other site 557722005472 ATP-binding site [chemical binding]; other site 557722005473 DEAD/H associated; Region: DEAD_assoc; pfam08494 557722005474 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 557722005475 Na binding site [ion binding]; other site 557722005476 PAS fold; Region: PAS_7; pfam12860 557722005477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722005478 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 557722005479 dimer interface [polypeptide binding]; other site 557722005480 phosphorylation site [posttranslational modification] 557722005481 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722005482 ATP binding site [chemical binding]; other site 557722005483 Mg2+ binding site [ion binding]; other site 557722005484 G-X-G motif; other site 557722005485 Response regulator receiver domain; Region: Response_reg; pfam00072 557722005486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722005487 active site 557722005488 phosphorylation site [posttranslational modification] 557722005489 intermolecular recognition site; other site 557722005490 dimerization interface [polypeptide binding]; other site 557722005491 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557722005492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557722005493 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722005494 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722005495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722005496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722005497 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 557722005498 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 557722005499 N-terminal plug; other site 557722005500 ligand-binding site [chemical binding]; other site 557722005501 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722005502 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722005503 putative substrate translocation pore; other site 557722005504 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557722005505 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557722005506 putative acyl-acceptor binding pocket; other site 557722005507 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 557722005508 DNA-binding site [nucleotide binding]; DNA binding site 557722005509 RNA-binding motif; other site 557722005510 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 557722005511 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 557722005512 Sodium Bile acid symporter family; Region: SBF; pfam01758 557722005513 recombination associated protein; Reviewed; Region: rdgC; PRK00321 557722005514 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 557722005515 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 557722005516 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557722005517 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 557722005518 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 557722005519 substrate binding pocket [chemical binding]; other site 557722005520 membrane-bound complex binding site; other site 557722005521 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 557722005522 non-specific DNA binding site [nucleotide binding]; other site 557722005523 salt bridge; other site 557722005524 sequence-specific DNA binding site [nucleotide binding]; other site 557722005525 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 557722005526 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 557722005527 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722005528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722005529 metal binding site [ion binding]; metal-binding site 557722005530 active site 557722005531 I-site; other site 557722005532 carboxy-terminal protease; Provisional; Region: PRK11186 557722005533 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 557722005534 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 557722005535 protein binding site [polypeptide binding]; other site 557722005536 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 557722005537 Catalytic dyad [active] 557722005538 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 557722005539 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 557722005540 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 557722005541 NAD(P) binding site [chemical binding]; other site 557722005542 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557722005543 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557722005544 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557722005545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722005546 Walker A/P-loop; other site 557722005547 ATP binding site [chemical binding]; other site 557722005548 Q-loop/lid; other site 557722005549 ABC transporter signature motif; other site 557722005550 Walker B; other site 557722005551 D-loop; other site 557722005552 H-loop/switch region; other site 557722005553 TOBE domain; Region: TOBE_2; pfam08402 557722005554 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557722005555 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722005556 dimer interface [polypeptide binding]; other site 557722005557 conserved gate region; other site 557722005558 putative PBP binding loops; other site 557722005559 ABC-ATPase subunit interface; other site 557722005560 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557722005561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722005562 dimer interface [polypeptide binding]; other site 557722005563 conserved gate region; other site 557722005564 putative PBP binding loops; other site 557722005565 ABC-ATPase subunit interface; other site 557722005566 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 557722005567 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557722005568 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557722005569 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722005570 DNA-binding site [nucleotide binding]; DNA binding site 557722005571 transcriptional regulator protein; Region: phnR; TIGR03337 557722005572 UTRA domain; Region: UTRA; pfam07702 557722005573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557722005574 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557722005575 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 557722005576 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 557722005577 active site 557722005578 metal binding site [ion binding]; metal-binding site 557722005579 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557722005580 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557722005581 active site 557722005582 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 557722005583 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 557722005584 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 557722005585 Switch I; other site 557722005586 Switch II; other site 557722005587 septum formation inhibitor; Reviewed; Region: minC; PRK00339 557722005588 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 557722005589 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 557722005590 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 557722005591 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 557722005592 putative acyl-acceptor binding pocket; other site 557722005593 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 557722005594 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 557722005595 active site 557722005596 nucleophile elbow; other site 557722005597 Pirin-related protein [General function prediction only]; Region: COG1741 557722005598 Pirin; Region: Pirin; pfam02678 557722005599 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557722005600 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 557722005601 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722005602 Predicted membrane protein [Function unknown]; Region: COG3205 557722005603 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557722005604 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 557722005605 Predicted membrane protein [Function unknown]; Region: COG3162 557722005606 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 557722005607 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 557722005608 Na binding site [ion binding]; other site 557722005609 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 557722005610 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 557722005611 ligand binding site [chemical binding]; other site 557722005612 flexible hinge region; other site 557722005613 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 557722005614 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557722005615 metal binding triad; other site 557722005616 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 557722005617 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 557722005618 active site 557722005619 catalytic site [active] 557722005620 substrate binding site [chemical binding]; other site 557722005621 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 557722005622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 557722005623 Protein of unknown function, DUF482; Region: DUF482; pfam04339 557722005624 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 557722005625 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557722005626 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557722005627 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 557722005628 Walker A/P-loop; other site 557722005629 ATP binding site [chemical binding]; other site 557722005630 Q-loop/lid; other site 557722005631 ABC transporter signature motif; other site 557722005632 Walker B; other site 557722005633 D-loop; other site 557722005634 H-loop/switch region; other site 557722005635 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 557722005636 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 557722005637 substrate binding site [chemical binding]; other site 557722005638 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722005639 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557722005640 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 557722005641 catalytic site [active] 557722005642 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722005643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722005644 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 557722005645 dimerization interface [polypeptide binding]; other site 557722005646 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 557722005647 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722005648 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557722005649 EamA-like transporter family; Region: EamA; pfam00892 557722005650 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 557722005651 dimer interface [polypeptide binding]; other site 557722005652 putative tRNA-binding site [nucleotide binding]; other site 557722005653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722005654 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722005655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722005656 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557722005657 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 557722005658 putative active site [active] 557722005659 putative metal binding site [ion binding]; other site 557722005660 MASE2 domain; Region: MASE2; pfam05230 557722005661 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 557722005662 cyclase homology domain; Region: CHD; cd07302 557722005663 nucleotidyl binding site; other site 557722005664 metal binding site [ion binding]; metal-binding site 557722005665 dimer interface [polypeptide binding]; other site 557722005666 Predicted membrane protein [Function unknown]; Region: COG4323 557722005667 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722005668 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722005669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722005670 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 557722005671 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 557722005672 mce related protein; Region: MCE; pfam02470 557722005673 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 557722005674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722005675 Walker A/P-loop; other site 557722005676 ATP binding site [chemical binding]; other site 557722005677 Q-loop/lid; other site 557722005678 ABC transporter signature motif; other site 557722005679 Walker B; other site 557722005680 D-loop; other site 557722005681 H-loop/switch region; other site 557722005682 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 557722005683 Permease; Region: Permease; pfam02405 557722005684 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 557722005685 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557722005686 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 557722005687 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 557722005688 putative FMN binding site [chemical binding]; other site 557722005689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722005690 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 557722005691 dimerization interface [polypeptide binding]; other site 557722005692 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722005693 ATP binding site [chemical binding]; other site 557722005694 Mg2+ binding site [ion binding]; other site 557722005695 G-X-G motif; other site 557722005696 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 557722005697 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722005698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722005699 active site 557722005700 phosphorylation site [posttranslational modification] 557722005701 intermolecular recognition site; other site 557722005702 dimerization interface [polypeptide binding]; other site 557722005703 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 557722005704 DNA binding site [nucleotide binding] 557722005705 YciI-like protein; Reviewed; Region: PRK11370 557722005706 intracellular septation protein A; Reviewed; Region: PRK00259 557722005707 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 557722005708 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 557722005709 active site 557722005710 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 557722005711 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 557722005712 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 557722005713 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 557722005714 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 557722005715 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 557722005716 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 557722005717 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 557722005718 phosphogluconate dehydratase; Validated; Region: PRK09054 557722005719 6-phosphogluconate dehydratase; Region: edd; TIGR01196 557722005720 glucokinase, proteobacterial type; Region: glk; TIGR00749 557722005721 glucokinase; Provisional; Region: glk; PRK00292 557722005722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722005723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722005724 active site 557722005725 phosphorylation site [posttranslational modification] 557722005726 intermolecular recognition site; other site 557722005727 dimerization interface [polypeptide binding]; other site 557722005728 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 557722005729 DNA binding site [nucleotide binding] 557722005730 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 557722005731 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722005732 ATP binding site [chemical binding]; other site 557722005733 Mg2+ binding site [ion binding]; other site 557722005734 G-X-G motif; other site 557722005735 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557722005736 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557722005737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722005738 dimer interface [polypeptide binding]; other site 557722005739 conserved gate region; other site 557722005740 putative PBP binding loops; other site 557722005741 ABC-ATPase subunit interface; other site 557722005742 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557722005743 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722005744 dimer interface [polypeptide binding]; other site 557722005745 conserved gate region; other site 557722005746 putative PBP binding loops; other site 557722005747 ABC-ATPase subunit interface; other site 557722005748 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 557722005749 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557722005750 Walker A/P-loop; other site 557722005751 ATP binding site [chemical binding]; other site 557722005752 Q-loop/lid; other site 557722005753 ABC transporter signature motif; other site 557722005754 Walker B; other site 557722005755 D-loop; other site 557722005756 H-loop/switch region; other site 557722005757 TOBE domain; Region: TOBE; pfam03459 557722005758 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 557722005759 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 557722005760 active site 557722005761 phosphate binding residues; other site 557722005762 catalytic residues [active] 557722005763 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557722005764 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 557722005765 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 557722005766 putative active site [active] 557722005767 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 557722005768 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 557722005769 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 557722005770 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 557722005771 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 557722005772 putative active site [active] 557722005773 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 557722005774 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 557722005775 active site 557722005776 intersubunit interface [polypeptide binding]; other site 557722005777 catalytic residue [active] 557722005778 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 557722005779 nudix motif; other site 557722005780 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 557722005781 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 557722005782 RNA binding surface [nucleotide binding]; other site 557722005783 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 557722005784 probable active site [active] 557722005785 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722005786 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722005787 metal binding site [ion binding]; metal-binding site 557722005788 active site 557722005789 I-site; other site 557722005790 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 557722005791 agmatinase; Region: agmatinase; TIGR01230 557722005792 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 557722005793 putative active site [active] 557722005794 putative metal binding site [ion binding]; other site 557722005795 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557722005796 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 557722005797 Bacterial transcriptional regulator; Region: IclR; pfam01614 557722005798 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 557722005799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722005800 NAD(P) binding site [chemical binding]; other site 557722005801 active site 557722005802 phosphoglycolate phosphatase; Provisional; Region: PRK13222 557722005803 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 557722005804 motif II; other site 557722005805 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 557722005806 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722005807 S-adenosylmethionine binding site [chemical binding]; other site 557722005808 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 557722005809 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 557722005810 active site 557722005811 putative substrate binding pocket [chemical binding]; other site 557722005812 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 557722005813 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 557722005814 DNA gyrase subunit A; Validated; Region: PRK05560 557722005815 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 557722005816 CAP-like domain; other site 557722005817 active site 557722005818 primary dimer interface [polypeptide binding]; other site 557722005819 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557722005820 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557722005821 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557722005822 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557722005823 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557722005824 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557722005825 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 557722005826 homodimer interface [polypeptide binding]; other site 557722005827 substrate-cofactor binding pocket; other site 557722005828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722005829 catalytic residue [active] 557722005830 Chorismate mutase type II; Region: CM_2; cl00693 557722005831 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 557722005832 Prephenate dehydratase; Region: PDT; pfam00800 557722005833 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 557722005834 putative L-Phe binding site [chemical binding]; other site 557722005835 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 557722005836 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 557722005837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722005838 homodimer interface [polypeptide binding]; other site 557722005839 catalytic residue [active] 557722005840 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 557722005841 prephenate dehydrogenase; Validated; Region: PRK08507 557722005842 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 557722005843 hinge; other site 557722005844 active site 557722005845 cytidylate kinase; Provisional; Region: cmk; PRK00023 557722005846 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 557722005847 CMP-binding site; other site 557722005848 The sites determining sugar specificity; other site 557722005849 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 557722005850 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 557722005851 RNA binding site [nucleotide binding]; other site 557722005852 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 557722005853 RNA binding site [nucleotide binding]; other site 557722005854 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 557722005855 RNA binding site [nucleotide binding]; other site 557722005856 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 557722005857 RNA binding site [nucleotide binding]; other site 557722005858 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 557722005859 RNA binding site [nucleotide binding]; other site 557722005860 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 557722005861 RNA binding site [nucleotide binding]; other site 557722005862 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 557722005863 IHF dimer interface [polypeptide binding]; other site 557722005864 IHF - DNA interface [nucleotide binding]; other site 557722005865 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 557722005866 Chain length determinant protein; Region: Wzz; cl15801 557722005867 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 557722005868 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557722005869 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 557722005870 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 557722005871 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 557722005872 NAD binding site [chemical binding]; other site 557722005873 substrate binding site [chemical binding]; other site 557722005874 homodimer interface [polypeptide binding]; other site 557722005875 active site 557722005876 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 557722005877 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 557722005878 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722005879 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 557722005880 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 557722005881 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 557722005882 active site 557722005883 dimer interface [polypeptide binding]; other site 557722005884 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 557722005885 Ligand Binding Site [chemical binding]; other site 557722005886 Molecular Tunnel; other site 557722005887 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 557722005888 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 557722005889 putative ADP-binding pocket [chemical binding]; other site 557722005890 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 557722005891 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722005892 putative ADP-binding pocket [chemical binding]; other site 557722005893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722005894 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557722005895 active site 557722005896 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 557722005897 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 557722005898 Mg++ binding site [ion binding]; other site 557722005899 putative catalytic motif [active] 557722005900 putative substrate binding site [chemical binding]; other site 557722005901 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 557722005902 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 557722005903 NAD(P) binding site [chemical binding]; other site 557722005904 homodimer interface [polypeptide binding]; other site 557722005905 substrate binding site [chemical binding]; other site 557722005906 active site 557722005907 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 557722005908 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 557722005909 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 557722005910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722005911 homodimer interface [polypeptide binding]; other site 557722005912 catalytic residue [active] 557722005913 excinuclease ABC subunit B; Provisional; Region: PRK05298 557722005914 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 557722005915 ATP binding site [chemical binding]; other site 557722005916 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 557722005917 nucleotide binding region [chemical binding]; other site 557722005918 ATP-binding site [chemical binding]; other site 557722005919 Ultra-violet resistance protein B; Region: UvrB; pfam12344 557722005920 UvrB/uvrC motif; Region: UVR; pfam02151 557722005921 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722005922 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557722005923 putative substrate translocation pore; other site 557722005924 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557722005925 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722005926 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722005927 LysR family transcriptional regulator; Provisional; Region: PRK14997 557722005928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722005929 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 557722005930 putative effector binding pocket; other site 557722005931 dimerization interface [polypeptide binding]; other site 557722005932 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 557722005933 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557722005934 HIGH motif; other site 557722005935 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557722005936 active site 557722005937 KMSKS motif; other site 557722005938 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722005939 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722005940 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557722005941 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722005942 Entner-Doudoroff aldolase; Region: eda; TIGR01182 557722005943 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 557722005944 active site 557722005945 intersubunit interface [polypeptide binding]; other site 557722005946 catalytic residue [active] 557722005947 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 557722005948 active site 557722005949 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 557722005950 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 557722005951 FMN binding site [chemical binding]; other site 557722005952 active site 557722005953 catalytic residues [active] 557722005954 substrate binding site [chemical binding]; other site 557722005955 short chain dehydrogenase; Provisional; Region: PRK06123 557722005956 classical (c) SDRs; Region: SDR_c; cd05233 557722005957 NAD(P) binding site [chemical binding]; other site 557722005958 active site 557722005959 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 557722005960 dimer interface [polypeptide binding]; other site 557722005961 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722005962 ligand binding site [chemical binding]; other site 557722005963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722005964 Coenzyme A binding pocket [chemical binding]; other site 557722005965 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 557722005966 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 557722005967 putative dimer interface [polypeptide binding]; other site 557722005968 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 557722005969 active site 557722005970 catalytic triad [active] 557722005971 oxyanion hole [active] 557722005972 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722005973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722005974 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 557722005975 putative effector binding pocket; other site 557722005976 putative dimerization interface [polypeptide binding]; other site 557722005977 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 557722005978 homotrimer interaction site [polypeptide binding]; other site 557722005979 putative active site [active] 557722005980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722005981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722005982 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 557722005983 dimerization interface [polypeptide binding]; other site 557722005984 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 557722005985 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 557722005986 substrate binding site [chemical binding]; other site 557722005987 ligand binding site [chemical binding]; other site 557722005988 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 557722005989 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 557722005990 substrate binding site [chemical binding]; other site 557722005991 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722005992 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 557722005993 tartrate dehydrogenase; Region: TTC; TIGR02089 557722005994 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 557722005995 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557722005996 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 557722005997 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557722005998 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 557722005999 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722006000 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 557722006001 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 557722006002 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 557722006003 dimerization interface 3.5A [polypeptide binding]; other site 557722006004 active site 557722006005 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 557722006006 active site 557722006007 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 557722006008 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 557722006009 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 557722006010 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557722006011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 557722006012 Sporulation related domain; Region: SPOR; pfam05036 557722006013 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 557722006014 Colicin V production protein; Region: Colicin_V; cl00567 557722006015 amidophosphoribosyltransferase; Provisional; Region: PRK09246 557722006016 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 557722006017 active site 557722006018 tetramer interface [polypeptide binding]; other site 557722006019 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722006020 active site 557722006021 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 557722006022 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 557722006023 homodimer interface [polypeptide binding]; other site 557722006024 substrate-cofactor binding pocket; other site 557722006025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722006026 catalytic residue [active] 557722006027 oxidoreductase; Validated; Region: PRK05717 557722006028 Clostridium thermocellum A3DFK9-like, a putative carbohydrate or polyalcohol metabolizing SDR, classical (c) SDRs; Region: A3DFK9-like_SDR_c; cd09761 557722006029 NAD binding site [chemical binding]; other site 557722006030 active site 557722006031 homodimer interface [polypeptide binding]; other site 557722006032 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 557722006033 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722006034 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722006035 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722006036 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557722006037 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 557722006038 type II secretion system protein E; Region: type_II_gspE; TIGR02533 557722006039 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 557722006040 Walker A motif; other site 557722006041 ATP binding site [chemical binding]; other site 557722006042 Walker B motif; other site 557722006043 type II secretion system protein F; Region: GspF; TIGR02120 557722006044 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722006045 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722006046 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 557722006047 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 557722006048 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 557722006049 type II secretion system protein I; Region: gspI; TIGR01707 557722006050 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 557722006051 type II secretion system protein J; Region: gspJ; TIGR01711 557722006052 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 557722006053 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 557722006054 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 557722006055 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 557722006056 GspL periplasmic domain; Region: GspL_C; pfam12693 557722006057 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 557722006058 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722006059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722006060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722006061 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 557722006062 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557722006063 active site 557722006064 catalytic triad [active] 557722006065 dimer interface [polypeptide binding]; other site 557722006066 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722006067 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 557722006068 active site 557722006069 FMN binding site [chemical binding]; other site 557722006070 2,4-decadienoyl-CoA binding site; other site 557722006071 catalytic residue [active] 557722006072 4Fe-4S cluster binding site [ion binding]; other site 557722006073 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 557722006074 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 557722006075 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 557722006076 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 557722006077 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 557722006078 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 557722006079 active site 557722006080 metal binding site [ion binding]; metal-binding site 557722006081 Rhomboid family; Region: Rhomboid; pfam01694 557722006082 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 557722006083 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 557722006084 aminopeptidase N; Provisional; Region: pepN; PRK14015 557722006085 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 557722006086 active site 557722006087 Zn binding site [ion binding]; other site 557722006088 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 557722006089 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 557722006090 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 557722006091 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 557722006092 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722006093 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 557722006094 dimer interface [polypeptide binding]; other site 557722006095 phosphorylation site [posttranslational modification] 557722006096 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722006097 ATP binding site [chemical binding]; other site 557722006098 Mg2+ binding site [ion binding]; other site 557722006099 G-X-G motif; other site 557722006100 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722006101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006102 active site 557722006103 phosphorylation site [posttranslational modification] 557722006104 intermolecular recognition site; other site 557722006105 dimerization interface [polypeptide binding]; other site 557722006106 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 557722006107 DNA binding site [nucleotide binding] 557722006108 chlorophyllase; Region: PLN00021 557722006109 Oxygen tolerance; Region: BatD; pfam13584 557722006110 von Willebrand factor type A domain; Region: VWA_2; pfam13519 557722006111 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 557722006112 TPR repeat; Region: TPR_11; pfam13414 557722006113 binding surface 557722006114 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 557722006115 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 557722006116 metal ion-dependent adhesion site (MIDAS); other site 557722006117 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 557722006118 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 557722006119 Protein of unknown function DUF58; Region: DUF58; pfam01882 557722006120 MoxR-like ATPases [General function prediction only]; Region: COG0714 557722006121 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 557722006122 Walker A motif; other site 557722006123 ATP binding site [chemical binding]; other site 557722006124 Walker B motif; other site 557722006125 arginine finger; other site 557722006126 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 557722006127 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 557722006128 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557722006129 MarR family; Region: MarR_2; pfam12802 557722006130 Isochorismatase family; Region: Isochorismatase; pfam00857 557722006131 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 557722006132 catalytic triad [active] 557722006133 conserved cis-peptide bond; other site 557722006134 Uncharacterized conserved protein [Function unknown]; Region: COG3868 557722006135 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 557722006136 putative active site [active] 557722006137 Tetratricopeptide repeat; Region: TPR_15; pfam13429 557722006138 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 557722006139 GAF domain; Region: GAF_3; pfam13492 557722006140 HEAT repeats; Region: HEAT_2; pfam13646 557722006141 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 557722006142 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722006143 Predicted membrane protein [Function unknown]; Region: COG4267 557722006144 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557722006145 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 557722006146 non-specific DNA binding site [nucleotide binding]; other site 557722006147 salt bridge; other site 557722006148 sequence-specific DNA binding site [nucleotide binding]; other site 557722006149 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 557722006150 non-specific DNA binding site [nucleotide binding]; other site 557722006151 salt bridge; other site 557722006152 sequence-specific DNA binding site [nucleotide binding]; other site 557722006153 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 557722006154 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 557722006155 putative active site [active] 557722006156 Zn binding site [ion binding]; other site 557722006157 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722006158 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722006159 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 557722006160 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 557722006161 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 557722006162 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 557722006163 quinone interaction residues [chemical binding]; other site 557722006164 active site 557722006165 catalytic residues [active] 557722006166 FMN binding site [chemical binding]; other site 557722006167 substrate binding site [chemical binding]; other site 557722006168 Ribosome modulation factor [Translation, ribosomal structure and biogenesis]; Region: Rmf; COG3130 557722006169 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 557722006170 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 557722006171 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722006172 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722006173 S-adenosylmethionine binding site [chemical binding]; other site 557722006174 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 557722006175 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 557722006176 hypothetical protein; Provisional; Region: PRK11702 557722006177 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722006178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006179 active site 557722006180 phosphorylation site [posttranslational modification] 557722006181 intermolecular recognition site; other site 557722006182 dimerization interface [polypeptide binding]; other site 557722006183 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 557722006184 DNA binding residues [nucleotide binding] 557722006185 dimerization interface [polypeptide binding]; other site 557722006186 PAS domain; Region: PAS_9; pfam13426 557722006187 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 557722006188 dimer interface [polypeptide binding]; other site 557722006189 phosphorylation site [posttranslational modification] 557722006190 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722006191 ATP binding site [chemical binding]; other site 557722006192 Mg2+ binding site [ion binding]; other site 557722006193 G-X-G motif; other site 557722006194 Response regulator receiver domain; Region: Response_reg; pfam00072 557722006195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006196 active site 557722006197 phosphorylation site [posttranslational modification] 557722006198 intermolecular recognition site; other site 557722006199 dimerization interface [polypeptide binding]; other site 557722006200 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 557722006201 putative binding surface; other site 557722006202 active site 557722006203 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 557722006204 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722006205 Zn2+ binding site [ion binding]; other site 557722006206 Mg2+ binding site [ion binding]; other site 557722006207 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 557722006208 Predicted membrane protein [Function unknown]; Region: COG5393 557722006209 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 557722006210 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 557722006211 outer membrane porin, OprD family; Region: OprD; pfam03573 557722006212 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557722006213 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 557722006214 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722006215 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 557722006216 putative C-terminal domain interface [polypeptide binding]; other site 557722006217 putative GSH binding site (G-site) [chemical binding]; other site 557722006218 putative dimer interface [polypeptide binding]; other site 557722006219 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 557722006220 putative N-terminal domain interface [polypeptide binding]; other site 557722006221 putative dimer interface [polypeptide binding]; other site 557722006222 putative substrate binding pocket (H-site) [chemical binding]; other site 557722006223 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722006224 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722006225 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 557722006226 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 557722006227 Cytochrome c; Region: Cytochrom_C; pfam00034 557722006228 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 557722006229 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 557722006230 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 557722006231 GTP binding site; other site 557722006232 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 557722006233 MPT binding site; other site 557722006234 trimer interface [polypeptide binding]; other site 557722006235 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 557722006236 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 557722006237 dimer interface [polypeptide binding]; other site 557722006238 putative functional site; other site 557722006239 putative MPT binding site; other site 557722006240 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722006241 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722006242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722006243 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557722006244 FAD binding domain; Region: FAD_binding_4; pfam01565 557722006245 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 557722006246 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 557722006247 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 557722006248 putative N- and C-terminal domain interface [polypeptide binding]; other site 557722006249 putative active site [active] 557722006250 MgATP binding site [chemical binding]; other site 557722006251 catalytic site [active] 557722006252 metal binding site [ion binding]; metal-binding site 557722006253 putative carbohydrate binding site [chemical binding]; other site 557722006254 lipid kinase; Reviewed; Region: PRK13054 557722006255 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 557722006256 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 557722006257 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 557722006258 MOSC domain; Region: MOSC; pfam03473 557722006259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 557722006260 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 557722006261 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 557722006262 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722006263 catalytic residue [active] 557722006264 ABC transporter ATPase component; Reviewed; Region: PRK11147 557722006265 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722006266 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722006267 ABC transporter; Region: ABC_tran_2; pfam12848 557722006268 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722006269 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 557722006270 Ligand Binding Site [chemical binding]; other site 557722006271 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 557722006272 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 557722006273 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 557722006274 substrate binding site [chemical binding]; other site 557722006275 oxyanion hole (OAH) forming residues; other site 557722006276 trimer interface [polypeptide binding]; other site 557722006277 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557722006278 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557722006279 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 557722006280 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 557722006281 dimer interface [polypeptide binding]; other site 557722006282 active site 557722006283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4728 557722006284 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 557722006285 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 557722006286 active site 557722006287 interdomain interaction site; other site 557722006288 putative metal-binding site [ion binding]; other site 557722006289 nucleotide binding site [chemical binding]; other site 557722006290 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 557722006291 domain I; other site 557722006292 DNA binding groove [nucleotide binding] 557722006293 phosphate binding site [ion binding]; other site 557722006294 domain II; other site 557722006295 domain III; other site 557722006296 nucleotide binding site [chemical binding]; other site 557722006297 catalytic site [active] 557722006298 domain IV; other site 557722006299 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557722006300 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557722006301 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 557722006302 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 557722006303 SOS-response cell division inhibitor, blocks FtsZ ring formation [Cell division and chromosome partitioning]; Region: SulA; COG5404 557722006304 LexA repressor; Validated; Region: PRK00215 557722006305 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 557722006306 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 557722006307 Catalytic site [active] 557722006308 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722006309 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722006310 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 557722006311 beta-hexosaminidase; Provisional; Region: PRK05337 557722006312 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 557722006313 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 557722006314 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 557722006315 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 557722006316 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 557722006317 ATP binding site [chemical binding]; other site 557722006318 putative Mg++ binding site [ion binding]; other site 557722006319 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 557722006320 nucleotide binding region [chemical binding]; other site 557722006321 ATP-binding site [chemical binding]; other site 557722006322 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 557722006323 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 557722006324 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 557722006325 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 557722006326 aromatic amino acid transporter; Provisional; Region: PRK10238 557722006327 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 557722006328 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 557722006329 E3 interaction surface; other site 557722006330 lipoyl attachment site [posttranslational modification]; other site 557722006331 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 557722006332 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 557722006333 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 557722006334 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 557722006335 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 557722006336 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 557722006337 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 557722006338 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 557722006339 catalytic loop [active] 557722006340 iron binding site [ion binding]; other site 557722006341 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 557722006342 FAD binding pocket [chemical binding]; other site 557722006343 FAD binding motif [chemical binding]; other site 557722006344 phosphate binding motif [ion binding]; other site 557722006345 beta-alpha-beta structure motif; other site 557722006346 NAD binding pocket [chemical binding]; other site 557722006347 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 557722006348 ApbE family; Region: ApbE; pfam02424 557722006349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 557722006350 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 557722006351 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722006352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722006353 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557722006354 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 557722006355 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 557722006356 active site 557722006357 catalytic site [active] 557722006358 metal binding site [ion binding]; metal-binding site 557722006359 PilZ domain; Region: PilZ; pfam07238 557722006360 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 557722006361 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557722006362 FtsX-like permease family; Region: FtsX; pfam02687 557722006363 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 557722006364 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557722006365 Walker A/P-loop; other site 557722006366 ATP binding site [chemical binding]; other site 557722006367 Q-loop/lid; other site 557722006368 ABC transporter signature motif; other site 557722006369 Walker B; other site 557722006370 D-loop; other site 557722006371 H-loop/switch region; other site 557722006372 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 557722006373 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557722006374 FtsX-like permease family; Region: FtsX; pfam02687 557722006375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 557722006376 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 557722006377 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 557722006378 Competence protein; Region: Competence; pfam03772 557722006379 Competence protein; Region: Competence; cl00471 557722006380 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 557722006381 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 557722006382 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 557722006383 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557722006384 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 557722006385 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 557722006386 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 557722006387 Uncharacterized conserved protein [Function unknown]; Region: COG2835 557722006388 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 557722006389 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 557722006390 Ligand binding site; other site 557722006391 oligomer interface; other site 557722006392 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557722006393 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 557722006394 active site 557722006395 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 557722006396 FAD binding domain; Region: FAD_binding_4; pfam01565 557722006397 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 557722006398 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 557722006399 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 557722006400 homodimer interface [polypeptide binding]; other site 557722006401 oligonucleotide binding site [chemical binding]; other site 557722006402 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 557722006403 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 557722006404 RNA binding surface [nucleotide binding]; other site 557722006405 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557722006406 active site 557722006407 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557722006408 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 557722006409 motif II; other site 557722006410 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 557722006411 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 557722006412 tandem repeat interface [polypeptide binding]; other site 557722006413 oligomer interface [polypeptide binding]; other site 557722006414 active site residues [active] 557722006415 Maf-like protein; Region: Maf; pfam02545 557722006416 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 557722006417 active site 557722006418 dimer interface [polypeptide binding]; other site 557722006419 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 557722006420 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 557722006421 putative phosphate acyltransferase; Provisional; Region: PRK05331 557722006422 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 557722006423 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557722006424 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 557722006425 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 557722006426 NAD(P) binding site [chemical binding]; other site 557722006427 homotetramer interface [polypeptide binding]; other site 557722006428 homodimer interface [polypeptide binding]; other site 557722006429 active site 557722006430 acyl carrier protein; Provisional; Region: acpP; PRK00982 557722006431 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 557722006432 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 557722006433 dimer interface [polypeptide binding]; other site 557722006434 active site 557722006435 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 557722006436 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 557722006437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722006438 catalytic residue [active] 557722006439 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 557722006440 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 557722006441 dimerization interface [polypeptide binding]; other site 557722006442 thymidylate kinase; Validated; Region: tmk; PRK00698 557722006443 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 557722006444 TMP-binding site; other site 557722006445 ATP-binding site [chemical binding]; other site 557722006446 DNA polymerase III subunit delta'; Validated; Region: PRK05707 557722006447 DNA polymerase III subunit delta'; Validated; Region: PRK08485 557722006448 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 557722006449 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557722006450 active site 557722006451 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557722006452 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 557722006453 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722006454 catalytic residue [active] 557722006455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722006456 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722006457 WHG domain; Region: WHG; pfam13305 557722006458 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 557722006459 Radical SAM superfamily; Region: Radical_SAM; pfam04055 557722006460 FeS/SAM binding site; other site 557722006461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 557722006462 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 557722006463 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 557722006464 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722006465 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 557722006466 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 557722006467 Ligand binding site [chemical binding]; other site 557722006468 Electron transfer flavoprotein domain; Region: ETF; pfam01012 557722006469 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 557722006470 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 557722006471 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 557722006472 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 557722006473 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 557722006474 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 557722006475 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 557722006476 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722006477 nucleophilic elbow; other site 557722006478 catalytic triad; other site 557722006479 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 557722006480 active site 557722006481 SAM binding site [chemical binding]; other site 557722006482 homodimer interface [polypeptide binding]; other site 557722006483 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 557722006484 Predicted integral membrane protein [Function unknown]; Region: COG5446 557722006485 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 557722006486 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 557722006487 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 557722006488 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 557722006489 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 557722006490 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 557722006491 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 557722006492 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557722006493 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 557722006494 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722006495 Walker A motif; other site 557722006496 ATP binding site [chemical binding]; other site 557722006497 Walker B motif; other site 557722006498 arginine finger; other site 557722006499 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 557722006500 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 557722006501 metal ion-dependent adhesion site (MIDAS); other site 557722006502 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 557722006503 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 557722006504 dimer interface [polypeptide binding]; other site 557722006505 active site 557722006506 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 557722006507 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 557722006508 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 557722006509 PA/protease or protease-like domain interface [polypeptide binding]; other site 557722006510 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 557722006511 active site 557722006512 metal binding site [ion binding]; metal-binding site 557722006513 xanthine permease; Region: pbuX; TIGR03173 557722006514 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 557722006515 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722006516 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557722006517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722006518 putative substrate translocation pore; other site 557722006519 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722006520 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 557722006521 FMN binding site [chemical binding]; other site 557722006522 active site 557722006523 substrate binding site [chemical binding]; other site 557722006524 catalytic residue [active] 557722006525 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722006526 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722006527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722006528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006529 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 557722006530 dimerization interface [polypeptide binding]; other site 557722006531 LysE type translocator; Region: LysE; cl00565 557722006532 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 557722006533 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 557722006534 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 557722006535 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557722006536 Walker A/P-loop; other site 557722006537 ATP binding site [chemical binding]; other site 557722006538 Q-loop/lid; other site 557722006539 ABC transporter signature motif; other site 557722006540 Walker B; other site 557722006541 D-loop; other site 557722006542 H-loop/switch region; other site 557722006543 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722006544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722006545 dimer interface [polypeptide binding]; other site 557722006546 conserved gate region; other site 557722006547 putative PBP binding loops; other site 557722006548 ABC-ATPase subunit interface; other site 557722006549 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722006550 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722006551 dimer interface [polypeptide binding]; other site 557722006552 conserved gate region; other site 557722006553 putative PBP binding loops; other site 557722006554 ABC-ATPase subunit interface; other site 557722006555 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 557722006556 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 557722006557 substrate binding pocket [chemical binding]; other site 557722006558 membrane-bound complex binding site; other site 557722006559 hinge residues; other site 557722006560 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557722006561 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 557722006562 metal binding site [ion binding]; metal-binding site 557722006563 putative dimer interface [polypeptide binding]; other site 557722006564 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 557722006565 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006566 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722006567 dimerization interface [polypeptide binding]; other site 557722006568 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 557722006569 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557722006570 dimerization interface [polypeptide binding]; other site 557722006571 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722006572 dimer interface [polypeptide binding]; other site 557722006573 putative CheW interface [polypeptide binding]; other site 557722006574 short chain dehydrogenase; Provisional; Region: PRK12744 557722006575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722006576 NAD(P) binding site [chemical binding]; other site 557722006577 active site 557722006578 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722006579 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722006580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722006581 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557722006582 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557722006583 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557722006584 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 557722006585 ABC-ATPase subunit interface; other site 557722006586 dimer interface [polypeptide binding]; other site 557722006587 putative PBP binding regions; other site 557722006588 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 557722006589 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 557722006590 putative ligand binding residues [chemical binding]; other site 557722006591 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 557722006592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722006593 Walker A/P-loop; other site 557722006594 ATP binding site [chemical binding]; other site 557722006595 Q-loop/lid; other site 557722006596 ABC transporter signature motif; other site 557722006597 Walker B; other site 557722006598 H-loop/switch region; other site 557722006599 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557722006600 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 557722006601 N-terminal plug; other site 557722006602 ligand-binding site [chemical binding]; other site 557722006603 Predicted membrane protein [Function unknown]; Region: COG1971 557722006604 Domain of unknown function DUF; Region: DUF204; pfam02659 557722006605 Domain of unknown function DUF; Region: DUF204; pfam02659 557722006606 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 557722006607 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 557722006608 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 557722006609 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 557722006610 active site 557722006611 putative homodimer interface [polypeptide binding]; other site 557722006612 SAM binding site [chemical binding]; other site 557722006613 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 557722006614 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722006615 S-adenosylmethionine binding site [chemical binding]; other site 557722006616 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 557722006617 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557722006618 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 557722006619 Precorrin-8X methylmutase; Region: CbiC; pfam02570 557722006620 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 557722006621 homodimer interface [polypeptide binding]; other site 557722006622 active site 557722006623 SAM binding site [chemical binding]; other site 557722006624 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 557722006625 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 557722006626 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 557722006627 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 557722006628 active site 557722006629 SAM binding site [chemical binding]; other site 557722006630 homodimer interface [polypeptide binding]; other site 557722006631 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 557722006632 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722006633 substrate binding pocket [chemical binding]; other site 557722006634 membrane-bound complex binding site; other site 557722006635 hinge residues; other site 557722006636 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 557722006637 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722006638 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722006639 ligand binding site [chemical binding]; other site 557722006640 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722006641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006642 active site 557722006643 phosphorylation site [posttranslational modification] 557722006644 intermolecular recognition site; other site 557722006645 dimerization interface [polypeptide binding]; other site 557722006646 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 557722006647 DNA binding residues [nucleotide binding] 557722006648 dimerization interface [polypeptide binding]; other site 557722006649 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 557722006650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722006651 DNA-binding site [nucleotide binding]; DNA binding site 557722006652 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 557722006653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722006654 homodimer interface [polypeptide binding]; other site 557722006655 catalytic residue [active] 557722006656 RNA polymerase sigma factor; Provisional; Region: PRK12513 557722006657 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722006658 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 557722006659 DNA binding residues [nucleotide binding] 557722006660 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 557722006661 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722006662 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722006663 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 557722006664 acyl-activating enzyme (AAE) consensus motif; other site 557722006665 acyl-activating enzyme (AAE) consensus motif; other site 557722006666 putative AMP binding site [chemical binding]; other site 557722006667 putative active site [active] 557722006668 putative CoA binding site [chemical binding]; other site 557722006669 short chain dehydrogenase; Provisional; Region: PRK08278 557722006670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722006671 NAD(P) binding site [chemical binding]; other site 557722006672 active site 557722006673 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 557722006674 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722006675 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557722006676 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 557722006677 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 557722006678 carboxyltransferase (CT) interaction site; other site 557722006679 biotinylation site [posttranslational modification]; other site 557722006680 enoyl-CoA hydratase; Provisional; Region: PRK05995 557722006681 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 557722006682 substrate binding site [chemical binding]; other site 557722006683 oxyanion hole (OAH) forming residues; other site 557722006684 trimer interface [polypeptide binding]; other site 557722006685 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722006686 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722006687 active site 557722006688 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 557722006689 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 557722006690 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 557722006691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722006692 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557722006693 NAD(P) binding site [chemical binding]; other site 557722006694 active site 557722006695 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 557722006696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722006697 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722006698 CAAX protease self-immunity; Region: Abi; pfam02517 557722006699 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 557722006700 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 557722006701 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 557722006702 phosphorylation site [posttranslational modification] 557722006703 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722006704 ATP binding site [chemical binding]; other site 557722006705 Mg2+ binding site [ion binding]; other site 557722006706 G-X-G motif; other site 557722006707 Response regulator receiver domain; Region: Response_reg; pfam00072 557722006708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006709 active site 557722006710 phosphorylation site [posttranslational modification] 557722006711 intermolecular recognition site; other site 557722006712 dimerization interface [polypeptide binding]; other site 557722006713 Predicted membrane protein [Function unknown]; Region: COG4125 557722006714 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 557722006715 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 557722006716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722006717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006718 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 557722006719 dimerization interface [polypeptide binding]; other site 557722006720 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 557722006721 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722006722 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006723 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 557722006724 putative effector binding pocket; other site 557722006725 putative dimerization interface [polypeptide binding]; other site 557722006726 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 557722006727 active site 557722006728 dimer interface [polypeptide binding]; other site 557722006729 MoxR-like ATPases [General function prediction only]; Region: COG0714 557722006730 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722006731 Walker A motif; other site 557722006732 ATP binding site [chemical binding]; other site 557722006733 Walker B motif; other site 557722006734 arginine finger; other site 557722006735 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 557722006736 Protein of unknown function DUF58; Region: DUF58; pfam01882 557722006737 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 557722006738 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557722006739 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557722006740 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 557722006741 Uncharacterized conserved protein [Function unknown]; Region: COG5607 557722006742 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 557722006743 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 557722006744 active site 557722006745 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 557722006746 active site 2 [active] 557722006747 active site 1 [active] 557722006748 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722006749 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722006750 metal binding site [ion binding]; metal-binding site 557722006751 active site 557722006752 I-site; other site 557722006753 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 557722006754 Terminase small subunit; Region: Terminase_2; cl01513 557722006755 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 557722006756 dimerization interface [polypeptide binding]; other site 557722006757 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722006758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722006759 dimer interface [polypeptide binding]; other site 557722006760 putative CheW interface [polypeptide binding]; other site 557722006761 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557722006762 active site 557722006763 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 557722006764 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 557722006765 substrate binding pocket [chemical binding]; other site 557722006766 membrane-bound complex binding site; other site 557722006767 hinge residues; other site 557722006768 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 557722006769 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722006770 catalytic residue [active] 557722006771 Predicted membrane protein [Function unknown]; Region: COG2259 557722006772 lipase chaperone; Provisional; Region: PRK01294 557722006773 Lipase chaperone [Posttranslational modification, protein turnover, chaperones]; Region: LimK; COG5380 557722006774 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 557722006775 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 557722006776 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 557722006777 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557722006778 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557722006779 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 557722006780 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 557722006781 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557722006782 Walker A/P-loop; other site 557722006783 ATP binding site [chemical binding]; other site 557722006784 Q-loop/lid; other site 557722006785 ABC transporter signature motif; other site 557722006786 Walker B; other site 557722006787 D-loop; other site 557722006788 H-loop/switch region; other site 557722006789 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 557722006790 active site 557722006791 catalytic triad [active] 557722006792 oxyanion hole [active] 557722006793 switch loop; other site 557722006794 L,D-transpeptidase; Provisional; Region: PRK10260 557722006795 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 557722006796 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557722006797 Protein of unknown function (DUF3359); Region: DUF3359; pfam11839 557722006798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 557722006799 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 557722006800 elongation factor P; Validated; Region: PRK00529 557722006801 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 557722006802 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 557722006803 RNA binding site [nucleotide binding]; other site 557722006804 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 557722006805 RNA binding site [nucleotide binding]; other site 557722006806 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 557722006807 Transcriptional regulators [Transcription]; Region: MarR; COG1846 557722006808 MarR family; Region: MarR; pfam01047 557722006809 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722006810 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006811 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 557722006812 putative effector binding pocket; other site 557722006813 dimerization interface [polypeptide binding]; other site 557722006814 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557722006815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722006816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006817 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 557722006818 dimerization interface [polypeptide binding]; other site 557722006819 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 557722006820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 557722006821 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 557722006822 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 557722006823 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 557722006824 enoyl-CoA hydratase; Provisional; Region: PRK06563 557722006825 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 557722006826 substrate binding site [chemical binding]; other site 557722006827 oxyanion hole (OAH) forming residues; other site 557722006828 trimer interface [polypeptide binding]; other site 557722006829 helicase 45; Provisional; Region: PTZ00424 557722006830 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 557722006831 ATP binding site [chemical binding]; other site 557722006832 Mg++ binding site [ion binding]; other site 557722006833 motif III; other site 557722006834 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 557722006835 nucleotide binding region [chemical binding]; other site 557722006836 ATP-binding site [chemical binding]; other site 557722006837 DbpA RNA binding domain; Region: DbpA; pfam03880 557722006838 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 557722006839 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 557722006840 putative active site [active] 557722006841 metal binding site [ion binding]; metal-binding site 557722006842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722006843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006844 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 557722006845 putative effector binding pocket; other site 557722006846 dimerization interface [polypeptide binding]; other site 557722006847 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557722006848 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 557722006849 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722006850 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722006851 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557722006852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722006853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722006854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722006855 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 557722006856 putative substrate binding pocket [chemical binding]; other site 557722006857 putative dimerization interface [polypeptide binding]; other site 557722006858 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 557722006859 Ligand Binding Site [chemical binding]; other site 557722006860 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 557722006861 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 557722006862 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 557722006863 putative active site [active] 557722006864 Zn binding site [ion binding]; other site 557722006865 heat shock protein HtpX; Provisional; Region: PRK05457 557722006866 aminotransferase AlaT; Validated; Region: PRK09265 557722006867 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 557722006868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722006869 homodimer interface [polypeptide binding]; other site 557722006870 catalytic residue [active] 557722006871 methionine sulfoxide reductase B; Provisional; Region: PRK00222 557722006872 SelR domain; Region: SelR; pfam01641 557722006873 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 557722006874 catalytic residues [active] 557722006875 dimer interface [polypeptide binding]; other site 557722006876 MarR family; Region: MarR_2; cl17246 557722006877 Transcriptional regulators [Transcription]; Region: MarR; COG1846 557722006878 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 557722006879 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722006880 ATP binding site [chemical binding]; other site 557722006881 Mg2+ binding site [ion binding]; other site 557722006882 G-X-G motif; other site 557722006883 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722006884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006885 active site 557722006886 phosphorylation site [posttranslational modification] 557722006887 intermolecular recognition site; other site 557722006888 dimerization interface [polypeptide binding]; other site 557722006889 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 557722006890 Protein of unknown function (DUF815); Region: DUF815; pfam05673 557722006891 Walker A motif; other site 557722006892 ATP binding site [chemical binding]; other site 557722006893 Walker B motif; other site 557722006894 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 557722006895 GAF domain; Region: GAF_2; pfam13185 557722006896 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722006897 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 557722006898 C-terminal domain interface [polypeptide binding]; other site 557722006899 GSH binding site (G-site) [chemical binding]; other site 557722006900 dimer interface [polypeptide binding]; other site 557722006901 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 557722006902 N-terminal domain interface [polypeptide binding]; other site 557722006903 dimer interface [polypeptide binding]; other site 557722006904 substrate binding pocket (H-site) [chemical binding]; other site 557722006905 Killing trait; Region: RebB; pfam11747 557722006906 Killing trait; Region: RebB; pfam11747 557722006907 Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]; Region: PheS; COG0016 557722006908 Killing trait; Region: RebB; pfam11747 557722006909 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 557722006910 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 557722006911 DNA binding residues [nucleotide binding] 557722006912 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557722006913 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 557722006914 ligand binding site [chemical binding]; other site 557722006915 flexible hinge region; other site 557722006916 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 557722006917 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 557722006918 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 557722006919 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 557722006920 active site 557722006921 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 557722006922 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557722006923 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557722006924 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722006925 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 557722006926 putative C-terminal domain interface [polypeptide binding]; other site 557722006927 putative GSH binding site (G-site) [chemical binding]; other site 557722006928 putative dimer interface [polypeptide binding]; other site 557722006929 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 557722006930 putative N-terminal domain interface [polypeptide binding]; other site 557722006931 putative dimer interface [polypeptide binding]; other site 557722006932 putative substrate binding pocket (H-site) [chemical binding]; other site 557722006933 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557722006934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722006935 Walker A/P-loop; other site 557722006936 ATP binding site [chemical binding]; other site 557722006937 Q-loop/lid; other site 557722006938 ABC transporter signature motif; other site 557722006939 Walker B; other site 557722006940 D-loop; other site 557722006941 H-loop/switch region; other site 557722006942 inner membrane transport permease; Provisional; Region: PRK15066 557722006943 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557722006944 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557722006945 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 557722006946 dimerization interface [polypeptide binding]; other site 557722006947 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 557722006948 dimer interface [polypeptide binding]; other site 557722006949 phosphorylation site [posttranslational modification] 557722006950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722006951 ATP binding site [chemical binding]; other site 557722006952 Mg2+ binding site [ion binding]; other site 557722006953 G-X-G motif; other site 557722006954 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 557722006955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006956 active site 557722006957 phosphorylation site [posttranslational modification] 557722006958 intermolecular recognition site; other site 557722006959 dimerization interface [polypeptide binding]; other site 557722006960 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 557722006961 DNA binding site [nucleotide binding] 557722006962 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 557722006963 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 557722006964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 557722006965 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 557722006966 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 557722006967 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 557722006968 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722006969 Zn2+ binding site [ion binding]; other site 557722006970 Mg2+ binding site [ion binding]; other site 557722006971 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 557722006972 transcriptional regulator protein; Region: phnR; TIGR03337 557722006973 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722006974 DNA-binding site [nucleotide binding]; DNA binding site 557722006975 UTRA domain; Region: UTRA; pfam07702 557722006976 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 557722006977 active site 557722006978 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 557722006979 PilZ domain; Region: PilZ; pfam07238 557722006980 Response regulator receiver domain; Region: Response_reg; pfam00072 557722006981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722006982 active site 557722006983 phosphorylation site [posttranslational modification] 557722006984 intermolecular recognition site; other site 557722006985 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 557722006986 dimerization interface [polypeptide binding]; other site 557722006987 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 557722006988 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 557722006989 anti sigma factor interaction site; other site 557722006990 regulatory phosphorylation site [posttranslational modification]; other site 557722006991 transaldolase-like protein; Provisional; Region: PTZ00411 557722006992 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 557722006993 active site 557722006994 dimer interface [polypeptide binding]; other site 557722006995 catalytic residue [active] 557722006996 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 557722006997 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 557722006998 FMN binding site [chemical binding]; other site 557722006999 active site 557722007000 catalytic residues [active] 557722007001 substrate binding site [chemical binding]; other site 557722007002 Isochorismatase family; Region: Isochorismatase; pfam00857 557722007003 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 557722007004 catalytic triad [active] 557722007005 conserved cis-peptide bond; other site 557722007006 drug efflux system protein MdtG; Provisional; Region: PRK09874 557722007007 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722007008 putative substrate translocation pore; other site 557722007009 Right handed beta helix region; Region: Beta_helix; pfam13229 557722007010 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 557722007011 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722007012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722007013 dimer interface [polypeptide binding]; other site 557722007014 putative CheW interface [polypeptide binding]; other site 557722007015 glutamate carboxypeptidase; Reviewed; Region: PRK06133 557722007016 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 557722007017 metal binding site [ion binding]; metal-binding site 557722007018 dimer interface [polypeptide binding]; other site 557722007019 GAF domain; Region: GAF_2; pfam13185 557722007020 Predicted transcriptional regulator [Transcription]; Region: COG3655 557722007021 salt bridge; other site 557722007022 non-specific DNA binding site [nucleotide binding]; other site 557722007023 sequence-specific DNA binding site [nucleotide binding]; other site 557722007024 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 557722007025 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 557722007026 active site 557722007027 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 557722007028 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 557722007029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557722007030 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 557722007031 non-specific DNA binding site [nucleotide binding]; other site 557722007032 salt bridge; other site 557722007033 sequence-specific DNA binding site [nucleotide binding]; other site 557722007034 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 557722007035 putative active site [active] 557722007036 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 557722007037 binding surface 557722007038 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 557722007039 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722007040 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722007041 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 557722007042 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 557722007043 GAF domain; Region: GAF; pfam01590 557722007044 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722007045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722007046 metal binding site [ion binding]; metal-binding site 557722007047 active site 557722007048 I-site; other site 557722007049 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 557722007050 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 557722007051 nudix motif; other site 557722007052 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 557722007053 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 557722007054 substrate binding site [chemical binding]; other site 557722007055 oxyanion hole (OAH) forming residues; other site 557722007056 trimer interface [polypeptide binding]; other site 557722007057 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 557722007058 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722007059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722007060 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 557722007061 Serine hydrolase; Region: Ser_hydrolase; cl17834 557722007062 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722007063 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 557722007064 outer membrane porin, OprD family; Region: OprD; pfam03573 557722007065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722007066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722007067 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 557722007068 dimerization interface [polypeptide binding]; other site 557722007069 Predicted membrane protein [Function unknown]; Region: COG4125 557722007070 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 557722007071 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 557722007072 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 557722007073 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 557722007074 secondary substrate binding site; other site 557722007075 primary substrate binding site; other site 557722007076 inhibition loop; other site 557722007077 dimerization interface [polypeptide binding]; other site 557722007078 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 557722007079 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 557722007080 Predicted membrane protein [Function unknown]; Region: COG1238 557722007081 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 557722007082 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 557722007083 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 557722007084 DNA-specific endonuclease I; Provisional; Region: PRK15137 557722007085 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 557722007086 active site 557722007087 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 557722007088 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722007089 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 557722007090 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 557722007091 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 557722007092 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 557722007093 active site 557722007094 dimer interface [polypeptide binding]; other site 557722007095 motif 1; other site 557722007096 motif 2; other site 557722007097 motif 3; other site 557722007098 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 557722007099 anticodon binding site; other site 557722007100 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 557722007101 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 557722007102 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 557722007103 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 557722007104 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 557722007105 23S rRNA binding site [nucleotide binding]; other site 557722007106 L21 binding site [polypeptide binding]; other site 557722007107 L13 binding site [polypeptide binding]; other site 557722007108 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 557722007109 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 557722007110 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 557722007111 dimer interface [polypeptide binding]; other site 557722007112 motif 1; other site 557722007113 active site 557722007114 motif 2; other site 557722007115 motif 3; other site 557722007116 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 557722007117 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 557722007118 putative tRNA-binding site [nucleotide binding]; other site 557722007119 B3/4 domain; Region: B3_4; pfam03483 557722007120 tRNA synthetase B5 domain; Region: B5; smart00874 557722007121 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 557722007122 dimer interface [polypeptide binding]; other site 557722007123 motif 1; other site 557722007124 motif 3; other site 557722007125 motif 2; other site 557722007126 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 557722007127 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 557722007128 IHF dimer interface [polypeptide binding]; other site 557722007129 IHF - DNA interface [nucleotide binding]; other site 557722007130 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 557722007131 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 557722007132 DNA binding residues [nucleotide binding] 557722007133 LESGI-1 557722007134 Transposase; Region: HTH_Tnp_1; pfam01527 557722007135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 557722007136 HTH-like domain; Region: HTH_21; pfam13276 557722007137 Integrase core domain; Region: rve; pfam00665 557722007138 Integrase core domain; Region: rve_3; pfam13683 557722007139 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 557722007140 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 557722007141 Protein of unknown function (DUF524); Region: DUF524; pfam04411 557722007142 putative phage-type endonuclease; Region: phage_rel_nuc; TIGR03033 557722007143 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 557722007144 Nuclease-related domain; Region: NERD; pfam08378 557722007145 Part of AAA domain; Region: AAA_19; pfam13245 557722007146 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 557722007147 Family description; Region: UvrD_C_2; pfam13538 557722007148 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 557722007149 WYL domain; Region: WYL; pfam13280 557722007150 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557722007151 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557722007152 HerA helicase [Replication, recombination, and repair]; Region: COG0433 557722007153 Domain of unknown function DUF87; Region: DUF87; pfam01935 557722007154 Catalytic domain of Protein Kinases; Region: PKc; cd00180 557722007155 active site 557722007156 ATP binding site [chemical binding]; other site 557722007157 substrate binding site [chemical binding]; other site 557722007158 activation loop (A-loop); other site 557722007159 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 557722007160 TPR motif; other site 557722007161 binding surface 557722007162 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 557722007163 active site 557722007164 Int/Topo IB signature motif; other site 557722007165 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 557722007166 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 557722007167 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 557722007168 active site 557722007169 DNA binding site [nucleotide binding] 557722007170 Int/Topo IB signature motif; other site 557722007171 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 557722007172 MPN+ (JAMM) motif; other site 557722007173 Zinc-binding site [ion binding]; other site 557722007174 NlpC/P60 family; Region: NLPC_P60; cl17555 557722007175 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557722007176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 557722007177 HTH-like domain; Region: HTH_21; pfam13276 557722007178 Integrase core domain; Region: rve; pfam00665 557722007179 Integrase core domain; Region: rve_3; pfam13683 557722007180 Transposase; Region: HTH_Tnp_1; pfam01527 557722007181 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 557722007182 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 557722007183 HTH-like domain; Region: HTH_21; pfam13276 557722007184 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 557722007185 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557722007186 active site 557722007187 ATP binding site [chemical binding]; other site 557722007188 substrate binding site [chemical binding]; other site 557722007189 activation loop (A-loop); other site 557722007190 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 557722007191 AAA domain; Region: AAA_11; pfam13086 557722007192 Part of AAA domain; Region: AAA_19; pfam13245 557722007193 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 557722007194 AAA domain; Region: AAA_12; pfam13087 557722007195 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 557722007196 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 557722007197 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 557722007198 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722007199 Walker A motif; other site 557722007200 ATP binding site [chemical binding]; other site 557722007201 Walker B motif; other site 557722007202 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557722007203 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557722007204 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 557722007205 dimer interface [polypeptide binding]; other site 557722007206 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 557722007207 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 557722007208 potential catalytic triad [active] 557722007209 conserved cys residue [active] 557722007210 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 557722007211 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 557722007212 DNA binding residues [nucleotide binding] 557722007213 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722007214 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722007215 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722007216 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722007217 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 557722007218 putative active site [active] 557722007219 putative FMN binding site [chemical binding]; other site 557722007220 putative substrate binding site [chemical binding]; other site 557722007221 putative catalytic residue [active] 557722007222 Ferredoxin [Energy production and conversion]; Region: COG1146 557722007223 4Fe-4S binding domain; Region: Fer4; cl02805 557722007224 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 557722007225 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 557722007226 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 557722007227 putative [Fe4-S4] binding site [ion binding]; other site 557722007228 putative molybdopterin cofactor binding site [chemical binding]; other site 557722007229 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 557722007230 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 557722007231 putative molybdopterin cofactor binding site; other site 557722007232 Predicted transcriptional regulators [Transcription]; Region: COG1733 557722007233 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557722007234 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 557722007235 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 557722007236 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722007237 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557722007238 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557722007239 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 557722007240 dimer interface [polypeptide binding]; other site 557722007241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722007242 catalytic residue [active] 557722007243 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 557722007244 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557722007245 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722007246 Walker A motif; other site 557722007247 ATP binding site [chemical binding]; other site 557722007248 Walker B motif; other site 557722007249 arginine finger; other site 557722007250 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557722007251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 557722007252 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722007253 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722007254 Tse2 immunity protein Tsi2 and similar proteins; Region: Tsi2_like; cd11690 557722007255 dimer interface [polypeptide binding]; other site 557722007256 Transmembrane secretion effector; Region: MFS_3; pfam05977 557722007257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722007258 putative substrate translocation pore; other site 557722007259 outer membrane porin, OprD family; Region: OprD; pfam03573 557722007260 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 557722007261 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 557722007262 active site 557722007263 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 557722007264 Isochorismatase family; Region: Isochorismatase; pfam00857 557722007265 catalytic triad [active] 557722007266 dimer interface [polypeptide binding]; other site 557722007267 conserved cis-peptide bond; other site 557722007268 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 557722007269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722007270 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722007271 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722007272 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 557722007273 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 557722007274 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557722007275 catalytic residues [active] 557722007276 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 557722007277 Predicted transcriptional regulator [Transcription]; Region: COG1959 557722007278 Transcriptional regulator; Region: Rrf2; pfam02082 557722007279 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557722007280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722007281 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 557722007282 outer membrane receptor FepA; Provisional; Region: PRK13524 557722007283 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 557722007284 N-terminal plug; other site 557722007285 ligand-binding site [chemical binding]; other site 557722007286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722007287 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 557722007288 phosphorylation site [posttranslational modification] 557722007289 dimer interface [polypeptide binding]; other site 557722007290 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722007291 ATP binding site [chemical binding]; other site 557722007292 Mg2+ binding site [ion binding]; other site 557722007293 G-X-G motif; other site 557722007294 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722007295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722007296 active site 557722007297 phosphorylation site [posttranslational modification] 557722007298 intermolecular recognition site; other site 557722007299 dimerization interface [polypeptide binding]; other site 557722007300 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 557722007301 DNA binding site [nucleotide binding] 557722007302 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557722007303 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722007304 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722007305 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 557722007306 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557722007307 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557722007308 RHS Repeat; Region: RHS_repeat; pfam05593 557722007309 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557722007310 RHS Repeat; Region: RHS_repeat; pfam05593 557722007311 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 557722007312 RHS Repeat; Region: RHS_repeat; pfam05593 557722007313 RHS Repeat; Region: RHS_repeat; cl11982 557722007314 RHS protein; Region: RHS; pfam03527 557722007315 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557722007316 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 557722007317 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 557722007318 tetramer interface [polypeptide binding]; other site 557722007319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722007320 catalytic residue [active] 557722007321 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 557722007322 SnoaL-like domain; Region: SnoaL_2; pfam12680 557722007323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722007324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722007325 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 557722007326 putative effector binding pocket; other site 557722007327 dimerization interface [polypeptide binding]; other site 557722007328 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 557722007329 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 557722007330 NADP binding site [chemical binding]; other site 557722007331 dimer interface [polypeptide binding]; other site 557722007332 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722007333 S-adenosylmethionine binding site [chemical binding]; other site 557722007334 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 557722007335 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 557722007336 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 557722007337 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 557722007338 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 557722007339 Walker A motif; other site 557722007340 ATP binding site [chemical binding]; other site 557722007341 Walker B motif; other site 557722007342 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 557722007343 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722007344 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722007345 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 557722007346 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 557722007347 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 557722007348 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 557722007349 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 557722007350 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 557722007351 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 557722007352 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 557722007353 active site 557722007354 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 557722007355 GAF domain; Region: GAF; pfam01590 557722007356 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722007357 Walker A motif; other site 557722007358 ATP binding site [chemical binding]; other site 557722007359 Walker B motif; other site 557722007360 arginine finger; other site 557722007361 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 557722007362 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 557722007363 heme-binding site [chemical binding]; other site 557722007364 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 557722007365 FAD binding pocket [chemical binding]; other site 557722007366 FAD binding motif [chemical binding]; other site 557722007367 phosphate binding motif [ion binding]; other site 557722007368 beta-alpha-beta structure motif; other site 557722007369 NAD binding pocket [chemical binding]; other site 557722007370 Heme binding pocket [chemical binding]; other site 557722007371 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 557722007372 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 557722007373 Predicted membrane protein [Function unknown]; Region: COG3212 557722007374 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 557722007375 Predicted membrane protein [Function unknown]; Region: COG3212 557722007376 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722007377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722007378 active site 557722007379 phosphorylation site [posttranslational modification] 557722007380 intermolecular recognition site; other site 557722007381 dimerization interface [polypeptide binding]; other site 557722007382 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 557722007383 DNA binding site [nucleotide binding] 557722007384 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722007385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722007386 ATP binding site [chemical binding]; other site 557722007387 Mg2+ binding site [ion binding]; other site 557722007388 G-X-G motif; other site 557722007389 Cache domain; Region: Cache_1; pfam02743 557722007390 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 557722007391 dimerization interface [polypeptide binding]; other site 557722007392 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722007393 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722007394 dimer interface [polypeptide binding]; other site 557722007395 putative CheW interface [polypeptide binding]; other site 557722007396 Predicted permease [General function prediction only]; Region: COG2056 557722007397 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 557722007398 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 557722007399 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 557722007400 dimerization interface [polypeptide binding]; other site 557722007401 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722007402 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722007403 dimer interface [polypeptide binding]; other site 557722007404 putative CheW interface [polypeptide binding]; other site 557722007405 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557722007406 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557722007407 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 557722007408 hypothetical protein; Reviewed; Region: PRK09588 557722007409 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722007410 S-adenosylmethionine binding site [chemical binding]; other site 557722007411 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 557722007412 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557722007413 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 557722007414 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557722007415 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 557722007416 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 557722007417 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557722007418 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 557722007419 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 557722007420 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 557722007421 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 557722007422 4Fe-4S binding domain; Region: Fer4; pfam00037 557722007423 4Fe-4S binding domain; Region: Fer4; pfam00037 557722007424 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 557722007425 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 557722007426 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 557722007427 catalytic loop [active] 557722007428 iron binding site [ion binding]; other site 557722007429 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 557722007430 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 557722007431 [4Fe-4S] binding site [ion binding]; other site 557722007432 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 557722007433 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 557722007434 SLBB domain; Region: SLBB; pfam10531 557722007435 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 557722007436 NADH dehydrogenase subunit E; Validated; Region: PRK07539 557722007437 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 557722007438 putative dimer interface [polypeptide binding]; other site 557722007439 [2Fe-2S] cluster binding site [ion binding]; other site 557722007440 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 557722007441 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 557722007442 NADH dehydrogenase subunit D; Validated; Region: PRK06075 557722007443 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 557722007444 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 557722007445 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 557722007446 CoenzymeA binding site [chemical binding]; other site 557722007447 subunit interaction site [polypeptide binding]; other site 557722007448 PHB binding site; other site 557722007449 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 557722007450 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 557722007451 tetramer interface [polypeptide binding]; other site 557722007452 active site 557722007453 Mg2+/Mn2+ binding site [ion binding]; other site 557722007454 isocitrate lyase; Region: PLN02892 557722007455 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722007456 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557722007457 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557722007458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722007459 Coenzyme A binding pocket [chemical binding]; other site 557722007460 Uncharacterized conserved protein [Function unknown]; Region: COG2850 557722007461 Cupin domain; Region: Cupin_2; cl17218 557722007462 adenylosuccinate lyase; Provisional; Region: PRK09285 557722007463 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 557722007464 tetramer interface [polypeptide binding]; other site 557722007465 active site 557722007466 EamA-like transporter family; Region: EamA; pfam00892 557722007467 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557722007468 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 557722007469 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 557722007470 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 557722007471 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 557722007472 nudix motif; other site 557722007473 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 557722007474 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 557722007475 isocitrate dehydrogenase; Validated; Region: PRK07362 557722007476 isocitrate dehydrogenase; Reviewed; Region: PRK07006 557722007477 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 557722007478 DNA-binding site [nucleotide binding]; DNA binding site 557722007479 RNA-binding motif; other site 557722007480 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 557722007481 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 557722007482 Clp amino terminal domain; Region: Clp_N; pfam02861 557722007483 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722007484 Walker A motif; other site 557722007485 ATP binding site [chemical binding]; other site 557722007486 Walker B motif; other site 557722007487 arginine finger; other site 557722007488 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722007489 Walker A motif; other site 557722007490 ATP binding site [chemical binding]; other site 557722007491 Walker B motif; other site 557722007492 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557722007493 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 557722007494 rRNA binding site [nucleotide binding]; other site 557722007495 predicted 30S ribosome binding site; other site 557722007496 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 557722007497 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 557722007498 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 557722007499 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 557722007500 thioredoxin reductase; Provisional; Region: PRK10262 557722007501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722007502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722007503 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 557722007504 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 557722007505 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 557722007506 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 557722007507 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 557722007508 recombination factor protein RarA; Reviewed; Region: PRK13342 557722007509 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722007510 Walker A motif; other site 557722007511 ATP binding site [chemical binding]; other site 557722007512 Walker B motif; other site 557722007513 arginine finger; other site 557722007514 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 557722007515 seryl-tRNA synthetase; Provisional; Region: PRK05431 557722007516 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 557722007517 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 557722007518 dimer interface [polypeptide binding]; other site 557722007519 active site 557722007520 motif 1; other site 557722007521 motif 2; other site 557722007522 motif 3; other site 557722007523 siroheme synthase; Provisional; Region: cysG; PRK10637 557722007524 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 557722007525 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 557722007526 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 557722007527 active site 557722007528 SAM binding site [chemical binding]; other site 557722007529 homodimer interface [polypeptide binding]; other site 557722007530 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 557722007531 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 557722007532 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 557722007533 putative dimer interface [polypeptide binding]; other site 557722007534 N-terminal domain interface [polypeptide binding]; other site 557722007535 putative substrate binding pocket (H-site) [chemical binding]; other site 557722007536 hypothetical protein; Validated; Region: PRK09071 557722007537 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 557722007538 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 557722007539 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 557722007540 sulfur relay protein TusC; Validated; Region: PRK00211 557722007541 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 557722007542 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557722007543 YccA-like proteins; Region: YccA_like; cd10433 557722007544 LES prophage 5 557722007545 integrase; Provisional; Region: int; PHA02601 557722007546 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 557722007547 active site 557722007548 DNA binding site [nucleotide binding] 557722007549 Int/Topo IB signature motif; other site 557722007550 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 557722007551 Duplication 2b 557722007552 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 557722007553 PLA2_like: Phospholipase A2, a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids (PC or phosphatidylethanolamine), usually in a...; Region: PLA2_like; cl05417 557722007554 primary metal binding site; other site 557722007555 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 557722007556 DNA methylase; Region: N6_N4_Mtase; pfam01555 557722007557 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557722007558 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722007559 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 557722007560 DNA binding residues [nucleotide binding] 557722007561 dimerization interface [polypeptide binding]; other site 557722007562 ParB-like nuclease domain; Region: ParBc; pfam02195 557722007563 KorB domain; Region: KorB; pfam08535 557722007564 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 557722007565 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 557722007566 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 557722007567 non-specific DNA binding site [nucleotide binding]; other site 557722007568 salt bridge; other site 557722007569 sequence-specific DNA binding site [nucleotide binding]; other site 557722007570 Predicted transcriptional regulator [Transcription]; Region: COG2932 557722007571 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 557722007572 Catalytic site [active] 557722007573 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 557722007574 non-specific DNA binding site [nucleotide binding]; other site 557722007575 salt bridge; other site 557722007576 sequence-specific DNA binding site [nucleotide binding]; other site 557722007577 YfbU domain; Region: YfbU; cl01137 557722007578 T5orf172 domain; Region: T5orf172; pfam10544 557722007579 Helix-turn-helix domain; Region: HTH_36; pfam13730 557722007580 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 557722007581 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 557722007582 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 557722007583 active site 557722007584 metal binding site [ion binding]; metal-binding site 557722007585 interdomain interaction site; other site 557722007586 AAA domain; Region: AAA_25; pfam13481 557722007587 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 557722007588 Walker A motif; other site 557722007589 ATP binding site [chemical binding]; other site 557722007590 Walker B motif; other site 557722007591 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 557722007592 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 557722007593 potential protein location (hypothetical protein PLES_25301 [Pseudomonas aeruginosa LESB58]) that overlaps RNA (tRNA-T) 557722007594 Protein of unknown function (DUF754); Region: DUF754; pfam05449 557722007595 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 557722007596 active site 557722007597 Phage terminase, small subunit; Region: Terminase_4; pfam05119 557722007598 Phage Terminase; Region: Terminase_1; pfam03354 557722007599 Phage-related protein [Function unknown]; Region: COG4695 557722007600 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 557722007601 Clp protease; Region: CLP_protease; pfam00574 557722007602 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 557722007603 oligomer interface [polypeptide binding]; other site 557722007604 active site residues [active] 557722007605 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557722007606 Phage capsid family; Region: Phage_capsid; pfam05065 557722007607 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 557722007608 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 557722007609 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 557722007610 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; cl10351 557722007611 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 557722007612 Methyltransferase domain; Region: Methyltransf_23; pfam13489 557722007613 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722007614 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 557722007615 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 557722007616 HNH endonuclease; Region: HNH_3; pfam13392 557722007617 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 557722007618 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 557722007619 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557722007620 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 557722007621 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 557722007622 Predicted chitinase [General function prediction only]; Region: COG3179 557722007623 catalytic residue [active] 557722007624 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 557722007625 active site residue [active] 557722007626 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 557722007627 active site residue [active] 557722007628 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 557722007629 active site residue [active] 557722007630 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 557722007631 active site residue [active] 557722007632 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 557722007633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722007634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722007635 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 557722007636 dimerization interface [polypeptide binding]; other site 557722007637 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 557722007638 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 557722007639 dimer interface [polypeptide binding]; other site 557722007640 active site 557722007641 non-prolyl cis peptide bond; other site 557722007642 insertion regions; other site 557722007643 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557722007644 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 557722007645 substrate binding pocket [chemical binding]; other site 557722007646 membrane-bound complex binding site; other site 557722007647 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 557722007648 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 557722007649 dimer interface [polypeptide binding]; other site 557722007650 active site 557722007651 non-prolyl cis peptide bond; other site 557722007652 insertion regions; other site 557722007653 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722007654 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 557722007655 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557722007656 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 557722007657 substrate binding pocket [chemical binding]; other site 557722007658 membrane-bound complex binding site; other site 557722007659 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 557722007660 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557722007661 membrane-bound complex binding site; other site 557722007662 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 557722007663 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 557722007664 substrate binding pocket [chemical binding]; other site 557722007665 membrane-bound complex binding site; other site 557722007666 hinge residues; other site 557722007667 LESGI-2 557722007668 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 557722007669 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 557722007670 malonyl-CoA binding site [chemical binding]; other site 557722007671 dimer interface [polypeptide binding]; other site 557722007672 active site 557722007673 product binding site; other site 557722007674 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 557722007675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722007676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722007677 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 557722007678 putative effector binding pocket; other site 557722007679 dimerization interface [polypeptide binding]; other site 557722007680 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 557722007681 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 557722007682 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722007683 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 557722007684 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 557722007685 active site 557722007686 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557722007687 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 557722007688 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 557722007689 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 557722007690 putative NADP binding site [chemical binding]; other site 557722007691 active site 557722007692 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722007693 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 557722007694 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722007695 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722007696 active site 557722007697 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 557722007698 AMP-binding enzyme; Region: AMP-binding; pfam00501 557722007699 acyl-activating enzyme (AAE) consensus motif; other site 557722007700 AMP binding site [chemical binding]; other site 557722007701 Thioesterase domain; Region: Thioesterase; pfam00975 557722007702 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722007703 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722007704 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 557722007705 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 557722007706 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722007707 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722007708 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557722007709 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557722007710 Walker A/P-loop; other site 557722007711 ATP binding site [chemical binding]; other site 557722007712 Q-loop/lid; other site 557722007713 ABC transporter signature motif; other site 557722007714 Walker B; other site 557722007715 D-loop; other site 557722007716 H-loop/switch region; other site 557722007717 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 557722007718 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 557722007719 Walker A/P-loop; other site 557722007720 ATP binding site [chemical binding]; other site 557722007721 Q-loop/lid; other site 557722007722 ABC transporter signature motif; other site 557722007723 Walker B; other site 557722007724 D-loop; other site 557722007725 H-loop/switch region; other site 557722007726 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557722007727 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 557722007728 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557722007729 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 557722007730 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557722007731 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557722007732 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 557722007733 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722007734 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722007735 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 557722007736 DNA binding residues [nucleotide binding] 557722007737 dimerization interface [polypeptide binding]; other site 557722007738 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722007739 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 557722007740 N-terminal plug; other site 557722007741 ligand-binding site [chemical binding]; other site 557722007742 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 557722007743 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 557722007744 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722007745 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722007746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722007747 hypothetical protein; Provisional; Region: PRK06753 557722007748 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557722007749 response regulator; Provisional; Region: PRK09483 557722007750 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722007751 active site 557722007752 phosphorylation site [posttranslational modification] 557722007753 intermolecular recognition site; other site 557722007754 dimerization interface [polypeptide binding]; other site 557722007755 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 557722007756 DNA binding residues [nucleotide binding] 557722007757 dimerization interface [polypeptide binding]; other site 557722007758 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 557722007759 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 557722007760 GIY-YIG motif/motif A; other site 557722007761 active site 557722007762 catalytic site [active] 557722007763 putative DNA binding site [nucleotide binding]; other site 557722007764 metal binding site [ion binding]; metal-binding site 557722007765 UvrB/uvrC motif; Region: UVR; pfam02151 557722007766 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 557722007767 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 557722007768 DNA binding site [nucleotide binding] 557722007769 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 557722007770 LESGI-3 557722007771 integrase; Provisional; Region: PRK09692 557722007772 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 557722007773 active site 557722007774 Int/Topo IB signature motif; other site 557722007775 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 557722007776 dimerization interface [polypeptide binding]; other site 557722007777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722007778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722007779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722007780 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 557722007781 dimerization interface [polypeptide binding]; other site 557722007782 substrate binding pocket [chemical binding]; other site 557722007783 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 557722007784 metal-binding site [ion binding] 557722007785 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 557722007786 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557722007787 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 557722007788 catalytic loop [active] 557722007789 iron binding site [ion binding]; other site 557722007790 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557722007791 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 557722007792 DNA binding residues [nucleotide binding] 557722007793 dimer interface [polypeptide binding]; other site 557722007794 copper binding site [ion binding]; other site 557722007795 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 557722007796 metal-binding site [ion binding] 557722007797 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557722007798 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 557722007799 metal-binding site [ion binding] 557722007800 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722007801 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 557722007802 motif II; other site 557722007803 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 557722007804 putative DNA binding site [nucleotide binding]; other site 557722007805 putative Zn2+ binding site [ion binding]; other site 557722007806 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 557722007807 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722007808 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557722007809 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 557722007810 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 557722007811 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722007812 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 557722007813 putative homodimer interface [polypeptide binding]; other site 557722007814 putative homotetramer interface [polypeptide binding]; other site 557722007815 putative metal binding site [ion binding]; other site 557722007816 putative homodimer-homodimer interface [polypeptide binding]; other site 557722007817 putative allosteric switch controlling residues; other site 557722007818 H+ Antiporter protein; Region: 2A0121; TIGR00900 557722007819 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722007820 putative substrate translocation pore; other site 557722007821 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557722007822 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 557722007823 dimerization interface [polypeptide binding]; other site 557722007824 putative DNA binding site [nucleotide binding]; other site 557722007825 putative Zn2+ binding site [ion binding]; other site 557722007826 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 557722007827 metal-binding site [ion binding] 557722007828 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 557722007829 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 557722007830 metal-binding site [ion binding] 557722007831 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722007832 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557722007833 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722007834 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557722007835 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557722007836 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 557722007837 mercuric reductase; Region: MerA; TIGR02053 557722007838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722007839 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557722007840 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 557722007841 SnoaL-like domain; Region: SnoaL_2; pfam12680 557722007842 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557722007843 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722007844 DNA-binding site [nucleotide binding]; DNA binding site 557722007845 FCD domain; Region: FCD; pfam07729 557722007846 Domain of unknown function (DUF305); Region: DUF305; pfam03713 557722007847 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 557722007848 catalytic residues [active] 557722007849 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 557722007850 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557722007851 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 557722007852 Putative helicase; Region: TraI_2; pfam07514 557722007853 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 557722007854 RES domain; Region: RES; smart00953 557722007855 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 557722007856 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 557722007857 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 557722007858 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 557722007859 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 557722007860 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 557722007861 MPN+ (JAMM) motif; other site 557722007862 Zinc-binding site [ion binding]; other site 557722007863 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 557722007864 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 557722007865 catalytic residues [active] 557722007866 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 557722007867 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 557722007868 ParA/MinD ATPase like; Region: ParA; pfam10609 557722007869 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 557722007870 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 557722007871 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 557722007872 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 557722007873 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 557722007874 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 557722007875 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 557722007876 DNA binding domain, excisionase family; Region: excise; TIGR01764 557722007877 PIN domain; Region: PIN_3; pfam13470 557722007878 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557722007879 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722007880 Walker A motif; other site 557722007881 ATP binding site [chemical binding]; other site 557722007882 Walker B motif; other site 557722007883 arginine finger; other site 557722007884 HORMA domain; Region: HORMA; pfam02301 557722007885 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 557722007886 active site 557722007887 NTP binding site [chemical binding]; other site 557722007888 metal binding triad [ion binding]; metal-binding site 557722007889 AAA domain; Region: AAA_23; pfam13476 557722007890 P-loop containing region of AAA domain; Region: AAA_29; cl17516 557722007891 AAA domain; Region: AAA_21; pfam13304 557722007892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722007893 ABC transporter signature motif; other site 557722007894 Walker B; other site 557722007895 D-loop; other site 557722007896 H-loop/switch region; other site 557722007897 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 557722007898 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 557722007899 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 557722007900 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 557722007901 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722007902 catalytic residue [active] 557722007903 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 557722007904 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 557722007905 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557722007906 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 557722007907 nucleotide binding region [chemical binding]; other site 557722007908 ATP-binding site [chemical binding]; other site 557722007909 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557722007910 S-adenosylmethionine binding site [chemical binding]; other site 557722007911 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 557722007912 Domain of unknown function (DUF932); Region: DUF932; pfam06067 557722007913 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 557722007914 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 557722007915 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 557722007916 putative mercuric reductase; Provisional; Region: PRK13748 557722007917 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 557722007918 metal-binding site [ion binding] 557722007919 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722007920 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722007921 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557722007922 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 557722007923 metal-binding site [ion binding] 557722007924 putative mercuric transport protein; Provisional; Region: PRK13751 557722007925 putative transcriptional regulator MerR; Provisional; Region: PRK13752 557722007926 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 557722007927 DNA binding residues [nucleotide binding] 557722007928 dimer interface [polypeptide binding]; other site 557722007929 mercury binding site [ion binding]; other site 557722007930 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 557722007931 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 557722007932 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 557722007933 metal-binding site [ion binding] 557722007934 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 557722007935 metal-binding site [ion binding] 557722007936 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 557722007937 metal-binding site [ion binding] 557722007938 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557722007939 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 557722007940 metal-binding site [ion binding] 557722007941 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722007942 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 557722007943 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 557722007944 DNA binding residues [nucleotide binding] 557722007945 dimer interface [polypeptide binding]; other site 557722007946 putative metal binding site [ion binding]; other site 557722007947 Cation efflux family; Region: Cation_efflux; cl00316 557722007948 DNA topoisomerase III; Provisional; Region: PRK07726 557722007949 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 557722007950 active site 557722007951 putative interdomain interaction site [polypeptide binding]; other site 557722007952 putative metal-binding site [ion binding]; other site 557722007953 putative nucleotide binding site [chemical binding]; other site 557722007954 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 557722007955 domain I; other site 557722007956 DNA binding groove [nucleotide binding] 557722007957 phosphate binding site [ion binding]; other site 557722007958 domain II; other site 557722007959 domain III; other site 557722007960 nucleotide binding site [chemical binding]; other site 557722007961 catalytic site [active] 557722007962 domain IV; other site 557722007963 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557722007964 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 557722007965 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 557722007966 dimer interface [polypeptide binding]; other site 557722007967 ssDNA binding site [nucleotide binding]; other site 557722007968 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557722007969 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 557722007970 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 557722007971 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 557722007972 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 557722007973 ParB-like nuclease domain; Region: ParBc; pfam02195 557722007974 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557722007975 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 557722007976 Magnesium ion binding site [ion binding]; other site 557722007977 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 557722007978 Domain of unknown function (DUF305); Region: DUF305; cl17794 557722007979 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557722007980 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 557722007981 substrate binding pocket [chemical binding]; other site 557722007982 membrane-bound complex binding site; other site 557722007983 hinge residues; other site 557722007984 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722007985 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 557722007986 substrate binding pocket [chemical binding]; other site 557722007987 membrane-bound complex binding site; other site 557722007988 hinge residues; other site 557722007989 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 557722007990 dimer interface [polypeptide binding]; other site 557722007991 phosphorylation site [posttranslational modification] 557722007992 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722007993 ATP binding site [chemical binding]; other site 557722007994 Mg2+ binding site [ion binding]; other site 557722007995 G-X-G motif; other site 557722007996 Response regulator receiver domain; Region: Response_reg; pfam00072 557722007997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722007998 active site 557722007999 phosphorylation site [posttranslational modification] 557722008000 intermolecular recognition site; other site 557722008001 dimerization interface [polypeptide binding]; other site 557722008002 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 557722008003 ProQ/FINO family; Region: ProQ; pfam04352 557722008004 putative RNA binding sites [nucleotide binding]; other site 557722008005 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 557722008006 Tryptophan 2,3-dioxygenase (vermilion) [Amino acid transport and metabolism]; Region: TDO2; COG3483 557722008007 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557722008008 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722008009 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722008010 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 557722008011 putative DNA binding site [nucleotide binding]; other site 557722008012 putative Zn2+ binding site [ion binding]; other site 557722008013 AsnC family; Region: AsnC_trans_reg; pfam01037 557722008014 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557722008015 EamA-like transporter family; Region: EamA; pfam00892 557722008016 EamA-like transporter family; Region: EamA; pfam00892 557722008017 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 557722008018 dimer interface [polypeptide binding]; other site 557722008019 FMN binding site [chemical binding]; other site 557722008020 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 557722008021 Fatty acid desaturase; Region: FA_desaturase; pfam00487 557722008022 Di-iron ligands [ion binding]; other site 557722008023 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557722008024 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 557722008025 dimerization interface [polypeptide binding]; other site 557722008026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722008027 dimer interface [polypeptide binding]; other site 557722008028 putative CheW interface [polypeptide binding]; other site 557722008029 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 557722008030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722008031 active site 557722008032 phosphorylation site [posttranslational modification] 557722008033 intermolecular recognition site; other site 557722008034 dimerization interface [polypeptide binding]; other site 557722008035 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722008036 Zn2+ binding site [ion binding]; other site 557722008037 Mg2+ binding site [ion binding]; other site 557722008038 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722008039 ATP binding site [chemical binding]; other site 557722008040 Mg2+ binding site [ion binding]; other site 557722008041 G-X-G motif; other site 557722008042 PA-IL-like protein; Region: PA-IL; pfam07828 557722008043 GAF domain; Region: GAF; pfam01590 557722008044 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 557722008045 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722008046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722008047 metal binding site [ion binding]; metal-binding site 557722008048 active site 557722008049 I-site; other site 557722008050 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 557722008051 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 557722008052 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 557722008053 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557722008054 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 557722008055 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 557722008056 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 557722008057 dimerization interface [polypeptide binding]; other site 557722008058 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722008059 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722008060 dimer interface [polypeptide binding]; other site 557722008061 putative CheW interface [polypeptide binding]; other site 557722008062 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 557722008063 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 557722008064 MgtC family; Region: MgtC; pfam02308 557722008065 AMP-binding domain protein; Validated; Region: PRK08315 557722008066 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722008067 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 557722008068 acyl-activating enzyme (AAE) consensus motif; other site 557722008069 putative AMP binding site [chemical binding]; other site 557722008070 putative active site [active] 557722008071 putative CoA binding site [chemical binding]; other site 557722008072 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722008073 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722008074 SurA N-terminal domain; Region: SurA_N; pfam09312 557722008075 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722008076 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 557722008077 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722008078 acyl-activating enzyme (AAE) consensus motif; other site 557722008079 AMP binding site [chemical binding]; other site 557722008080 active site 557722008081 CoA binding site [chemical binding]; other site 557722008082 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 557722008083 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 557722008084 NAD binding site [chemical binding]; other site 557722008085 homodimer interface [polypeptide binding]; other site 557722008086 homotetramer interface [polypeptide binding]; other site 557722008087 active site 557722008088 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 557722008089 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 557722008090 dimer interface [polypeptide binding]; other site 557722008091 active site 557722008092 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722008093 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722008094 active site 557722008095 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 557722008096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008097 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 557722008098 substrate binding pocket [chemical binding]; other site 557722008099 dimerization interface [polypeptide binding]; other site 557722008100 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722008101 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 557722008102 FAD binding site [chemical binding]; other site 557722008103 substrate binding site [chemical binding]; other site 557722008104 catalytic base [active] 557722008105 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 557722008106 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 557722008107 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557722008108 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722008109 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722008110 ligand binding site [chemical binding]; other site 557722008111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008112 LysR family transcriptional regulator; Provisional; Region: PRK14997 557722008113 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 557722008114 putative effector binding pocket; other site 557722008115 dimerization interface [polypeptide binding]; other site 557722008116 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 557722008117 dimer interface [polypeptide binding]; other site 557722008118 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722008119 metal binding site [ion binding]; metal-binding site 557722008120 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 557722008121 putative catalytic site [active] 557722008122 putative phosphate binding site [ion binding]; other site 557722008123 active site 557722008124 metal binding site A [ion binding]; metal-binding site 557722008125 DNA binding site [nucleotide binding] 557722008126 putative AP binding site [nucleotide binding]; other site 557722008127 putative metal binding site B [ion binding]; other site 557722008128 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 557722008129 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557722008130 Coenzyme A binding pocket [chemical binding]; other site 557722008131 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 557722008132 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557722008133 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557722008134 Surface antigen; Region: Bac_surface_Ag; pfam01103 557722008135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 557722008136 Family of unknown function (DUF490); Region: DUF490; pfam04357 557722008137 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 557722008138 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 557722008139 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722008140 Putative methyltransferase; Region: Methyltransf_20; pfam12147 557722008141 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 557722008142 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557722008143 active site 557722008144 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 557722008145 active site 557722008146 catalytic residues [active] 557722008147 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557722008148 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557722008149 putative acyl-acceptor binding pocket; other site 557722008150 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 557722008151 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 557722008152 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 557722008153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722008154 active site 557722008155 catalytic tetrad [active] 557722008156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008157 LysR family transcriptional regulator; Provisional; Region: PRK14997 557722008158 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 557722008159 putative effector binding pocket; other site 557722008160 putative dimerization interface [polypeptide binding]; other site 557722008161 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 557722008162 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 557722008163 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 557722008164 dimer interface [polypeptide binding]; other site 557722008165 catalytic triad [active] 557722008166 peroxidatic and resolving cysteines [active] 557722008167 putative aminotransferase; Provisional; Region: PRK09105 557722008168 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 557722008169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722008170 homodimer interface [polypeptide binding]; other site 557722008171 catalytic residue [active] 557722008172 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 557722008173 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 557722008174 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722008175 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722008176 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722008177 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 557722008178 Protein export membrane protein; Region: SecD_SecF; cl14618 557722008179 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 557722008180 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 557722008181 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557722008182 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 557722008183 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557722008184 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 557722008185 dimerization interface [polypeptide binding]; other site 557722008186 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 557722008187 dimer interface [polypeptide binding]; other site 557722008188 phosphorylation site [posttranslational modification] 557722008189 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722008190 ATP binding site [chemical binding]; other site 557722008191 Mg2+ binding site [ion binding]; other site 557722008192 G-X-G motif; other site 557722008193 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 557722008194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722008195 active site 557722008196 phosphorylation site [posttranslational modification] 557722008197 intermolecular recognition site; other site 557722008198 dimerization interface [polypeptide binding]; other site 557722008199 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 557722008200 DNA binding site [nucleotide binding] 557722008201 Outer membrane efflux protein; Region: OEP; pfam02321 557722008202 Outer membrane efflux protein; Region: OEP; pfam02321 557722008203 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722008204 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 557722008205 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722008206 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 557722008207 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722008208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722008209 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722008210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722008211 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 557722008212 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 557722008213 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 557722008214 putative alpha subunit interface [polypeptide binding]; other site 557722008215 putative active site [active] 557722008216 putative substrate binding site [chemical binding]; other site 557722008217 Fe binding site [ion binding]; other site 557722008218 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 557722008219 inter-subunit interface; other site 557722008220 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 557722008221 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 557722008222 catalytic loop [active] 557722008223 iron binding site [ion binding]; other site 557722008224 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 557722008225 FAD binding pocket [chemical binding]; other site 557722008226 FAD binding motif [chemical binding]; other site 557722008227 phosphate binding motif [ion binding]; other site 557722008228 beta-alpha-beta structure motif; other site 557722008229 NAD binding pocket [chemical binding]; other site 557722008230 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 557722008231 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 557722008232 putative NAD(P) binding site [chemical binding]; other site 557722008233 active site 557722008234 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 557722008235 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 557722008236 catalytic loop [active] 557722008237 iron binding site [ion binding]; other site 557722008238 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 557722008239 FAD binding pocket [chemical binding]; other site 557722008240 FAD binding motif [chemical binding]; other site 557722008241 phosphate binding motif [ion binding]; other site 557722008242 beta-alpha-beta structure motif; other site 557722008243 NAD binding pocket [chemical binding]; other site 557722008244 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 557722008245 inter-subunit interface; other site 557722008246 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 557722008247 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 557722008248 [2Fe-2S] cluster binding site [ion binding]; other site 557722008249 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 557722008250 putative alpha subunit interface [polypeptide binding]; other site 557722008251 putative active site [active] 557722008252 putative substrate binding site [chemical binding]; other site 557722008253 Fe binding site [ion binding]; other site 557722008254 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722008255 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557722008256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008257 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 557722008258 dimerization interface [polypeptide binding]; other site 557722008259 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 557722008260 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 557722008261 octamer interface [polypeptide binding]; other site 557722008262 active site 557722008263 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CatC1; COG4829 557722008264 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 557722008265 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 557722008266 dimer interface [polypeptide binding]; other site 557722008267 active site 557722008268 outer membrane porin, OprD family; Region: OprD; pfam03573 557722008269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 557722008270 Leucine rich repeat; Region: LRR_8; pfam13855 557722008271 Leucine rich repeat; Region: LRR_8; pfam13855 557722008272 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557722008273 active site 557722008274 ATP binding site [chemical binding]; other site 557722008275 substrate binding site [chemical binding]; other site 557722008276 activation loop (A-loop); other site 557722008277 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 557722008278 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722008279 putative substrate translocation pore; other site 557722008280 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 557722008281 nucleoside/Zn binding site; other site 557722008282 dimer interface [polypeptide binding]; other site 557722008283 catalytic motif [active] 557722008284 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 557722008285 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 557722008286 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 557722008287 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 557722008288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008289 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 557722008290 dimerization interface [polypeptide binding]; other site 557722008291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 557722008292 DinB superfamily; Region: DinB_2; pfam12867 557722008293 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557722008294 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722008295 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722008296 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722008297 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 557722008298 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557722008299 putative NAD(P) binding site [chemical binding]; other site 557722008300 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 557722008301 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722008302 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722008303 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722008304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722008305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722008306 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722008307 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 557722008308 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 557722008309 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 557722008310 Cytochrome c553 [Energy production and conversion]; Region: COG2863 557722008311 Cytochrome c; Region: Cytochrom_C; cl11414 557722008312 Cytochrome c [Energy production and conversion]; Region: COG3258 557722008313 Cytochrome c; Region: Cytochrom_C; pfam00034 557722008314 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722008315 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 557722008316 dimer interface [polypeptide binding]; other site 557722008317 phosphorylation site [posttranslational modification] 557722008318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722008319 ATP binding site [chemical binding]; other site 557722008320 G-X-G motif; other site 557722008321 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 557722008322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722008323 active site 557722008324 phosphorylation site [posttranslational modification] 557722008325 intermolecular recognition site; other site 557722008326 dimerization interface [polypeptide binding]; other site 557722008327 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 557722008328 DNA binding site [nucleotide binding] 557722008329 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 557722008330 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 557722008331 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 557722008332 DsbD alpha interface [polypeptide binding]; other site 557722008333 catalytic residues [active] 557722008334 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 557722008335 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 557722008336 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557722008337 catalytic residues [active] 557722008338 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 557722008339 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 557722008340 dimerization domain [polypeptide binding]; other site 557722008341 dimer interface [polypeptide binding]; other site 557722008342 catalytic residues [active] 557722008343 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 557722008344 Cytochrome P450; Region: p450; cl12078 557722008345 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 557722008346 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 557722008347 maleylacetoacetate isomerase; Region: maiA; TIGR01262 557722008348 C-terminal domain interface [polypeptide binding]; other site 557722008349 GSH binding site (G-site) [chemical binding]; other site 557722008350 putative dimer interface [polypeptide binding]; other site 557722008351 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 557722008352 dimer interface [polypeptide binding]; other site 557722008353 N-terminal domain interface [polypeptide binding]; other site 557722008354 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 557722008355 benzoate transport; Region: 2A0115; TIGR00895 557722008356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722008357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722008358 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 557722008359 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 557722008360 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 557722008361 Cupin domain; Region: Cupin_2; pfam07883 557722008362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008363 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 557722008364 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 557722008365 dimerization interface [polypeptide binding]; other site 557722008366 RNA polymerase sigma factor; Provisional; Region: PRK12528 557722008367 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722008368 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 557722008369 DNA binding residues [nucleotide binding] 557722008370 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722008371 FecR protein; Region: FecR; pfam04773 557722008372 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722008373 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 557722008374 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 557722008375 N-terminal plug; other site 557722008376 ligand-binding site [chemical binding]; other site 557722008377 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557722008378 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557722008379 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 557722008380 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 557722008381 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 557722008382 haemagglutination activity domain; Region: Haemagg_act; pfam05860 557722008383 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 557722008384 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 557722008385 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 557722008386 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 557722008387 RHS Repeat; Region: RHS_repeat; pfam05593 557722008388 RHS Repeat; Region: RHS_repeat; pfam05593 557722008389 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557722008390 RHS Repeat; Region: RHS_repeat; pfam05593 557722008391 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 557722008392 RHS Repeat; Region: RHS_repeat; pfam05593 557722008393 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557722008394 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557722008395 RHS Repeat; Region: RHS_repeat; pfam05593 557722008396 RHS Repeat; Region: RHS_repeat; cl11982 557722008397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722008398 Coenzyme A binding pocket [chemical binding]; other site 557722008399 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722008400 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722008401 S-adenosylmethionine binding site [chemical binding]; other site 557722008402 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 557722008403 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 557722008404 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 557722008405 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 557722008406 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 557722008407 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 557722008408 putative aromatic amino acid binding site; other site 557722008409 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722008410 Walker A motif; other site 557722008411 ATP binding site [chemical binding]; other site 557722008412 Walker B motif; other site 557722008413 arginine finger; other site 557722008414 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 557722008415 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 557722008416 active site 557722008417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722008418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008419 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 557722008420 dimerization interface [polypeptide binding]; other site 557722008421 putative effector binding pocket; other site 557722008422 glycine cleavage system protein H; Provisional; Region: PRK13380 557722008423 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 557722008424 lipoyl attachment site [posttranslational modification]; other site 557722008425 glycine dehydrogenase; Provisional; Region: PRK05367 557722008426 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 557722008427 tetramer interface [polypeptide binding]; other site 557722008428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722008429 catalytic residue [active] 557722008430 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 557722008431 tetramer interface [polypeptide binding]; other site 557722008432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722008433 catalytic residue [active] 557722008434 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557722008435 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 557722008436 dimer interface [polypeptide binding]; other site 557722008437 active site 557722008438 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557722008439 folate binding site [chemical binding]; other site 557722008440 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 557722008441 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 557722008442 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 557722008443 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 557722008444 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 557722008445 '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 557722008446 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 557722008447 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 557722008448 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 557722008449 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557722008450 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 557722008451 HflC protein; Region: hflC; TIGR01932 557722008452 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557722008453 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 557722008454 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 557722008455 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722008456 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722008457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008458 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 557722008459 putative effector binding pocket; other site 557722008460 dimerization interface [polypeptide binding]; other site 557722008461 Fusaric acid resistance protein family; Region: FUSC; pfam04632 557722008462 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 557722008463 multidrug resistance protein MdtN; Provisional; Region: PRK10476 557722008464 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722008465 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722008466 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 557722008467 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 557722008468 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722008469 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 557722008470 DNA binding residues [nucleotide binding] 557722008471 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 557722008472 peptide synthase; Validated; Region: PRK05691 557722008473 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 557722008474 acyl-activating enzyme (AAE) consensus motif; other site 557722008475 active site 557722008476 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008477 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008478 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008479 acyl-activating enzyme (AAE) consensus motif; other site 557722008480 AMP binding site [chemical binding]; other site 557722008481 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008482 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008483 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008484 acyl-activating enzyme (AAE) consensus motif; other site 557722008485 AMP binding site [chemical binding]; other site 557722008486 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008487 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 557722008488 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008489 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008490 acyl-activating enzyme (AAE) consensus motif; other site 557722008491 AMP binding site [chemical binding]; other site 557722008492 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008493 Prophage antirepressor [Transcription]; Region: COG3617 557722008494 BRO family, N-terminal domain; Region: Bro-N; smart01040 557722008495 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 557722008496 outer membrane porin, OprD family; Region: OprD; pfam03573 557722008497 Isochorismatase family; Region: Isochorismatase; pfam00857 557722008498 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 557722008499 catalytic triad [active] 557722008500 dimer interface [polypeptide binding]; other site 557722008501 conserved cis-peptide bond; other site 557722008502 Pirin-related protein [General function prediction only]; Region: COG1741 557722008503 Pirin; Region: Pirin; pfam02678 557722008504 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557722008505 LysR family transcriptional regulator; Provisional; Region: PRK14997 557722008506 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008507 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 557722008508 putative effector binding pocket; other site 557722008509 putative dimerization interface [polypeptide binding]; other site 557722008510 trehalase; Provisional; Region: treA; PRK13272 557722008511 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 557722008512 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 557722008513 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 557722008514 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 557722008515 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 557722008516 inhibitor-cofactor binding pocket; inhibition site 557722008517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722008518 catalytic residue [active] 557722008519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 557722008520 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 557722008521 Serine hydrolase; Region: Ser_hydrolase; cl17834 557722008522 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 557722008523 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557722008524 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 557722008525 ABC-ATPase subunit interface; other site 557722008526 dimer interface [polypeptide binding]; other site 557722008527 putative PBP binding regions; other site 557722008528 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 557722008529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722008530 Walker A/P-loop; other site 557722008531 ATP binding site [chemical binding]; other site 557722008532 Q-loop/lid; other site 557722008533 ABC transporter signature motif; other site 557722008534 Walker B; other site 557722008535 D-loop; other site 557722008536 H-loop/switch region; other site 557722008537 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 557722008538 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 557722008539 intersubunit interface [polypeptide binding]; other site 557722008540 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 557722008541 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 557722008542 FAD binding pocket [chemical binding]; other site 557722008543 FAD binding motif [chemical binding]; other site 557722008544 phosphate binding motif [ion binding]; other site 557722008545 NAD binding pocket [chemical binding]; other site 557722008546 Condensation domain; Region: Condensation; pfam00668 557722008547 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008548 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008549 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008550 acyl-activating enzyme (AAE) consensus motif; other site 557722008551 AMP binding site [chemical binding]; other site 557722008552 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008553 Condensation domain; Region: Condensation; pfam00668 557722008554 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 557722008555 Condensation domain; Region: Condensation; pfam00668 557722008556 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008557 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008558 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008559 acyl-activating enzyme (AAE) consensus motif; other site 557722008560 AMP binding site [chemical binding]; other site 557722008561 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008562 Condensation domain; Region: Condensation; pfam00668 557722008563 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008564 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008565 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008566 acyl-activating enzyme (AAE) consensus motif; other site 557722008567 AMP binding site [chemical binding]; other site 557722008568 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008569 Condensation domain; Region: Condensation; pfam00668 557722008570 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008571 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008572 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008573 acyl-activating enzyme (AAE) consensus motif; other site 557722008574 AMP binding site [chemical binding]; other site 557722008575 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008576 Condensation domain; Region: Condensation; pfam00668 557722008577 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008578 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008579 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008580 acyl-activating enzyme (AAE) consensus motif; other site 557722008581 AMP binding site [chemical binding]; other site 557722008582 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008583 Condensation domain; Region: Condensation; pfam00668 557722008584 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008585 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 557722008586 Condensation domain; Region: Condensation; pfam00668 557722008587 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008588 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008589 acyl-activating enzyme (AAE) consensus motif; other site 557722008590 AMP binding site [chemical binding]; other site 557722008591 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008592 Condensation domain; Region: Condensation; pfam00668 557722008593 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008594 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 557722008595 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 557722008596 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 557722008597 acyl-activating enzyme (AAE) consensus motif; other site 557722008598 AMP binding site [chemical binding]; other site 557722008599 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008600 Secretin and TonB N terminus short domain; Region: STN; pfam07660 557722008601 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 557722008602 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 557722008603 N-terminal plug; other site 557722008604 ligand-binding site [chemical binding]; other site 557722008605 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 557722008606 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 557722008607 Walker A/P-loop; other site 557722008608 ATP binding site [chemical binding]; other site 557722008609 Q-loop/lid; other site 557722008610 ABC transporter signature motif; other site 557722008611 Walker B; other site 557722008612 D-loop; other site 557722008613 H-loop/switch region; other site 557722008614 Secretin and TonB N terminus short domain; Region: STN; pfam07660 557722008615 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 557722008616 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 557722008617 N-terminal plug; other site 557722008618 ligand-binding site [chemical binding]; other site 557722008619 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 557722008620 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 557722008621 Walker A/P-loop; other site 557722008622 ATP binding site [chemical binding]; other site 557722008623 Q-loop/lid; other site 557722008624 ABC transporter signature motif; other site 557722008625 Walker B; other site 557722008626 D-loop; other site 557722008627 H-loop/switch region; other site 557722008628 Secretin and TonB N terminus short domain; Region: STN; pfam07660 557722008629 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 557722008630 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 557722008631 N-terminal plug; other site 557722008632 ligand-binding site [chemical binding]; other site 557722008633 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 557722008634 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 557722008635 Walker A/P-loop; other site 557722008636 ATP binding site [chemical binding]; other site 557722008637 Q-loop/lid; other site 557722008638 ABC transporter signature motif; other site 557722008639 Walker B; other site 557722008640 D-loop; other site 557722008641 H-loop/switch region; other site 557722008642 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 557722008643 catalytic site [active] 557722008644 Uncharacterized conserved protein [Function unknown]; Region: COG1262 557722008645 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 557722008646 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557722008647 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 557722008648 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722008649 catalytic residue [active] 557722008650 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 557722008651 active site 557722008652 dimer interface [polypeptide binding]; other site 557722008653 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 557722008654 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557722008655 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 557722008656 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557722008657 Walker A/P-loop; other site 557722008658 ATP binding site [chemical binding]; other site 557722008659 Q-loop/lid; other site 557722008660 ABC transporter signature motif; other site 557722008661 Walker B; other site 557722008662 D-loop; other site 557722008663 H-loop/switch region; other site 557722008664 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557722008665 FtsX-like permease family; Region: FtsX; pfam02687 557722008666 macrolide transporter subunit MacA; Provisional; Region: PRK11578 557722008667 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722008668 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722008669 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722008670 FecR protein; Region: FecR; pfam04773 557722008671 RNA polymerase sigma factor; Reviewed; Region: PRK12527 557722008672 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 557722008673 DNA binding residues [nucleotide binding] 557722008674 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 557722008675 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722008676 Penicillin amidase; Region: Penicil_amidase; pfam01804 557722008677 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 557722008678 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 557722008679 active site 557722008680 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 557722008681 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 557722008682 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722008683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008684 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 557722008685 dimerization interface [polypeptide binding]; other site 557722008686 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 557722008687 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 557722008688 phosphate binding site [ion binding]; other site 557722008689 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 557722008690 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557722008691 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 557722008692 catalytic loop [active] 557722008693 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 557722008694 iron binding site [ion binding]; other site 557722008695 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557722008696 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557722008697 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722008698 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557722008699 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722008700 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722008701 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557722008702 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722008703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722008704 active site 557722008705 phosphorylation site [posttranslational modification] 557722008706 intermolecular recognition site; other site 557722008707 dimerization interface [polypeptide binding]; other site 557722008708 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 557722008709 DNA binding residues [nucleotide binding] 557722008710 dimerization interface [polypeptide binding]; other site 557722008711 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 557722008712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 557722008713 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557722008714 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722008715 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722008716 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 557722008717 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 557722008718 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722008719 Walker A motif; other site 557722008720 ATP binding site [chemical binding]; other site 557722008721 Walker B motif; other site 557722008722 arginine finger; other site 557722008723 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722008724 Walker A motif; other site 557722008725 ATP binding site [chemical binding]; other site 557722008726 Walker B motif; other site 557722008727 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 557722008728 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 557722008729 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 557722008730 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 557722008731 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 557722008732 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 557722008733 Protein of unknown function (DUF877); Region: DUF877; pfam05943 557722008734 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 557722008735 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 557722008736 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 557722008737 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 557722008738 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 557722008739 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 557722008740 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 557722008741 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 557722008742 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722008743 Walker A motif; other site 557722008744 ATP binding site [chemical binding]; other site 557722008745 Walker B motif; other site 557722008746 arginine finger; other site 557722008747 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 557722008748 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 557722008749 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722008750 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 557722008751 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 557722008752 active site 557722008753 dimer interface [polypeptide binding]; other site 557722008754 non-prolyl cis peptide bond; other site 557722008755 insertion regions; other site 557722008756 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557722008757 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 557722008758 Flavin binding site [chemical binding]; other site 557722008759 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 557722008760 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722008761 Walker A motif; other site 557722008762 ATP binding site [chemical binding]; other site 557722008763 Walker B motif; other site 557722008764 arginine finger; other site 557722008765 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 557722008766 Predicted ATPase [General function prediction only]; Region: COG1485 557722008767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722008768 Walker B; other site 557722008769 D-loop; other site 557722008770 H-loop/switch region; other site 557722008771 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 557722008772 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 557722008773 active site 557722008774 catalytic site [active] 557722008775 metal binding site [ion binding]; metal-binding site 557722008776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722008777 dimer interface [polypeptide binding]; other site 557722008778 conserved gate region; other site 557722008779 ABC-ATPase subunit interface; other site 557722008780 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 557722008781 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 557722008782 Walker A/P-loop; other site 557722008783 ATP binding site [chemical binding]; other site 557722008784 Q-loop/lid; other site 557722008785 ABC transporter signature motif; other site 557722008786 Walker B; other site 557722008787 D-loop; other site 557722008788 H-loop/switch region; other site 557722008789 NIL domain; Region: NIL; pfam09383 557722008790 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557722008791 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557722008792 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 557722008793 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 557722008794 active site 557722008795 non-prolyl cis peptide bond; other site 557722008796 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557722008797 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722008798 active site 557722008799 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557722008800 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722008801 active site 557722008802 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 557722008803 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 557722008804 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557722008805 putative substrate binding site [chemical binding]; other site 557722008806 putative ATP binding site [chemical binding]; other site 557722008807 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 557722008808 N- and C-terminal domain interface [polypeptide binding]; other site 557722008809 D-xylulose kinase; Region: XylB; TIGR01312 557722008810 active site 557722008811 MgATP binding site [chemical binding]; other site 557722008812 catalytic site [active] 557722008813 metal binding site [ion binding]; metal-binding site 557722008814 xylulose binding site [chemical binding]; other site 557722008815 putative homodimer interface [polypeptide binding]; other site 557722008816 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 557722008817 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 557722008818 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 557722008819 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 557722008820 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557722008821 Walker A/P-loop; other site 557722008822 ATP binding site [chemical binding]; other site 557722008823 Q-loop/lid; other site 557722008824 ABC transporter signature motif; other site 557722008825 Walker B; other site 557722008826 D-loop; other site 557722008827 H-loop/switch region; other site 557722008828 TOBE domain; Region: TOBE_2; pfam08402 557722008829 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557722008830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722008831 dimer interface [polypeptide binding]; other site 557722008832 conserved gate region; other site 557722008833 ABC-ATPase subunit interface; other site 557722008834 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722008835 dimer interface [polypeptide binding]; other site 557722008836 conserved gate region; other site 557722008837 putative PBP binding loops; other site 557722008838 ABC-ATPase subunit interface; other site 557722008839 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 557722008840 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557722008841 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722008842 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722008843 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722008844 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 557722008845 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557722008846 substrate binding site [chemical binding]; other site 557722008847 activation loop (A-loop); other site 557722008848 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722008849 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 557722008850 N-terminal plug; other site 557722008851 ligand-binding site [chemical binding]; other site 557722008852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722008853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008854 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 557722008855 dimerization interface [polypeptide binding]; other site 557722008856 Sulfatase; Region: Sulfatase; cl17466 557722008857 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 557722008858 Cupin; Region: Cupin_6; pfam12852 557722008859 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722008860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722008861 Uncharacterized conserved protein [Function unknown]; Region: COG2128 557722008862 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 557722008863 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722008864 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722008865 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557722008866 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557722008867 Walker A/P-loop; other site 557722008868 ATP binding site [chemical binding]; other site 557722008869 Q-loop/lid; other site 557722008870 ABC transporter signature motif; other site 557722008871 Walker B; other site 557722008872 D-loop; other site 557722008873 H-loop/switch region; other site 557722008874 NMT1-like family; Region: NMT1_2; pfam13379 557722008875 NMT1/THI5 like; Region: NMT1; pfam09084 557722008876 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722008877 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722008878 dimer interface [polypeptide binding]; other site 557722008879 conserved gate region; other site 557722008880 putative PBP binding loops; other site 557722008881 ABC-ATPase subunit interface; other site 557722008882 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 557722008883 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 557722008884 active site 557722008885 non-prolyl cis peptide bond; other site 557722008886 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557722008887 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 557722008888 Flavin binding site [chemical binding]; other site 557722008889 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 557722008890 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557722008891 Flavin binding site [chemical binding]; other site 557722008892 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 557722008893 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557722008894 tetrameric interface [polypeptide binding]; other site 557722008895 activator binding site; other site 557722008896 NADP binding site [chemical binding]; other site 557722008897 substrate binding site [chemical binding]; other site 557722008898 catalytic residues [active] 557722008899 GntP family permease; Region: GntP_permease; pfam02447 557722008900 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557722008901 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 557722008902 AAA domain; Region: AAA_33; pfam13671 557722008903 ATP-binding site [chemical binding]; other site 557722008904 Gluconate-6-phosphate binding site [chemical binding]; other site 557722008905 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557722008906 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557722008907 DNA binding site [nucleotide binding] 557722008908 domain linker motif; other site 557722008909 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 557722008910 putative ligand binding site [chemical binding]; other site 557722008911 putative dimerization interface [polypeptide binding]; other site 557722008912 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 557722008913 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722008914 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722008915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722008916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722008917 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 557722008918 putative dimerization interface [polypeptide binding]; other site 557722008919 putative effector binding pocket; other site 557722008920 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557722008921 Beta-lactamase; Region: Beta-lactamase; pfam00144 557722008922 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557722008923 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 557722008924 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557722008925 non-specific DNA binding site [nucleotide binding]; other site 557722008926 salt bridge; other site 557722008927 sequence-specific DNA binding site [nucleotide binding]; other site 557722008928 Cupin domain; Region: Cupin_2; pfam07883 557722008929 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 557722008930 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 557722008931 active site 557722008932 iron coordination sites [ion binding]; other site 557722008933 substrate binding pocket [chemical binding]; other site 557722008934 NMT1-like family; Region: NMT1_2; pfam13379 557722008935 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557722008936 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557722008937 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557722008938 Walker A/P-loop; other site 557722008939 ATP binding site [chemical binding]; other site 557722008940 Q-loop/lid; other site 557722008941 ABC transporter signature motif; other site 557722008942 Walker B; other site 557722008943 D-loop; other site 557722008944 H-loop/switch region; other site 557722008945 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722008946 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722008947 putative PBP binding loops; other site 557722008948 ABC-ATPase subunit interface; other site 557722008949 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557722008950 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 557722008951 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 557722008952 acyl-activating enzyme (AAE) consensus motif; other site 557722008953 AMP binding site [chemical binding]; other site 557722008954 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008955 Condensation domain; Region: Condensation; pfam00668 557722008956 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008957 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557722008958 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 557722008959 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 557722008960 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 557722008961 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 557722008962 acyl-activating enzyme (AAE) consensus motif; other site 557722008963 AMP binding site [chemical binding]; other site 557722008964 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 557722008965 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557722008966 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 557722008967 Condensation domain; Region: Condensation; pfam00668 557722008968 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557722008969 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 557722008970 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 557722008971 putative deacylase active site [active] 557722008972 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 557722008973 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 557722008974 putative active site [active] 557722008975 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 557722008976 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 557722008977 Interdomain contacts; other site 557722008978 Cytokine receptor motif; other site 557722008979 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 557722008980 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557722008981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722008982 DNA-binding site [nucleotide binding]; DNA binding site 557722008983 UTRA domain; Region: UTRA; pfam07702 557722008984 putative oxidoreductase; Provisional; Region: PRK08275 557722008985 L-aspartate oxidase; Provisional; Region: PRK06175 557722008986 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557722008987 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557722008988 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 557722008989 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 557722008990 substrate binding pocket [chemical binding]; other site 557722008991 membrane-bound complex binding site; other site 557722008992 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557722008993 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 557722008994 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557722008995 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557722008996 Walker A/P-loop; other site 557722008997 ATP binding site [chemical binding]; other site 557722008998 Q-loop/lid; other site 557722008999 ABC transporter signature motif; other site 557722009000 Walker B; other site 557722009001 D-loop; other site 557722009002 H-loop/switch region; other site 557722009003 HEAT repeats; Region: HEAT_2; pfam13646 557722009004 HEAT repeats; Region: HEAT_2; pfam13646 557722009005 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 557722009006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 557722009007 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 557722009008 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 557722009009 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 557722009010 Trp docking motif [polypeptide binding]; other site 557722009011 putative active site [active] 557722009012 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722009013 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 557722009014 N-terminal plug; other site 557722009015 ligand-binding site [chemical binding]; other site 557722009016 Peptidase family M48; Region: Peptidase_M48; cl12018 557722009017 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 557722009018 Peptidase family M48; Region: Peptidase_M48; cl12018 557722009019 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722009020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722009021 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557722009022 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722009023 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557722009024 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 557722009025 active site 557722009026 arsenical pump membrane protein; Provisional; Region: PRK15445 557722009027 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 557722009028 transmembrane helices; other site 557722009029 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 557722009030 dimerization interface [polypeptide binding]; other site 557722009031 putative DNA binding site [nucleotide binding]; other site 557722009032 putative Zn2+ binding site [ion binding]; other site 557722009033 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 557722009034 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722009035 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722009036 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 557722009037 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 557722009038 putative NAD(P) binding site [chemical binding]; other site 557722009039 putative substrate binding site [chemical binding]; other site 557722009040 catalytic Zn binding site [ion binding]; other site 557722009041 structural Zn binding site [ion binding]; other site 557722009042 dimer interface [polypeptide binding]; other site 557722009043 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 557722009044 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 557722009045 DNA binding residues [nucleotide binding] 557722009046 dimer interface [polypeptide binding]; other site 557722009047 [2Fe-2S] cluster binding site [ion binding]; other site 557722009048 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 557722009049 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557722009050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557722009051 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557722009052 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722009053 Coenzyme A binding pocket [chemical binding]; other site 557722009054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722009055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722009056 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722009057 hypothetical protein; Validated; Region: PRK06186 557722009058 conserved cys residue [active] 557722009059 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 557722009060 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009062 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 557722009063 dimerization interface [polypeptide binding]; other site 557722009064 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722009065 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722009066 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722009067 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 557722009068 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557722009069 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 557722009070 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 557722009071 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 557722009072 dimerization interface [polypeptide binding]; other site 557722009073 ligand binding site [chemical binding]; other site 557722009074 NADP binding site [chemical binding]; other site 557722009075 catalytic site [active] 557722009076 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009077 D-galactonate transporter; Region: 2A0114; TIGR00893 557722009078 putative substrate translocation pore; other site 557722009079 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 557722009080 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557722009081 substrate binding site [chemical binding]; other site 557722009082 ATP binding site [chemical binding]; other site 557722009083 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 557722009084 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557722009085 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557722009086 DNA binding site [nucleotide binding] 557722009087 domain linker motif; other site 557722009088 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 557722009089 putative dimerization interface [polypeptide binding]; other site 557722009090 putative ligand binding site [chemical binding]; other site 557722009091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009093 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 557722009094 putative effector binding pocket; other site 557722009095 dimerization interface [polypeptide binding]; other site 557722009096 Cytochrome c553 [Energy production and conversion]; Region: COG2863 557722009097 Cytochrome c; Region: Cytochrom_C; cl11414 557722009098 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 557722009099 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 557722009100 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 557722009101 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 557722009102 substrate binding pocket [chemical binding]; other site 557722009103 active site 557722009104 iron coordination sites [ion binding]; other site 557722009105 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 557722009106 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 557722009107 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 557722009108 active site 557722009109 homodimer interface [polypeptide binding]; other site 557722009110 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 557722009111 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 557722009112 Helix-turn-helix domain; Region: HTH_19; pfam12844 557722009113 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 557722009114 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722009115 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557722009116 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 557722009117 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 557722009118 E3 interaction surface; other site 557722009119 lipoyl attachment site [posttranslational modification]; other site 557722009120 e3 binding domain; Region: E3_binding; pfam02817 557722009121 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557722009122 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 557722009123 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 557722009124 alpha subunit interface [polypeptide binding]; other site 557722009125 TPP binding site [chemical binding]; other site 557722009126 heterodimer interface [polypeptide binding]; other site 557722009127 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557722009128 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 557722009129 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 557722009130 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 557722009131 tetramer interface [polypeptide binding]; other site 557722009132 TPP-binding site [chemical binding]; other site 557722009133 heterodimer interface [polypeptide binding]; other site 557722009134 phosphorylation loop region [posttranslational modification] 557722009135 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722009136 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 557722009137 putative DNA binding site [nucleotide binding]; other site 557722009138 putative Zn2+ binding site [ion binding]; other site 557722009139 AsnC family; Region: AsnC_trans_reg; pfam01037 557722009140 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 557722009141 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 557722009142 active site 557722009143 DNA binding site [nucleotide binding] 557722009144 Int/Topo IB signature motif; other site 557722009145 catalytic residues [active] 557722009146 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 557722009147 Predicted oxidoreductase [General function prediction only]; Region: COG3573 557722009148 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 557722009149 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557722009150 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 557722009151 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 557722009152 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722009153 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 557722009154 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 557722009155 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 557722009156 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 557722009157 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722009158 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 557722009159 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 557722009160 Chain length determinant protein; Region: Wzz; cl15801 557722009161 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 557722009162 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 557722009163 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 557722009164 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 557722009165 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 557722009166 active site 557722009167 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 557722009168 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 557722009169 Substrate binding site; other site 557722009170 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 557722009171 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 557722009172 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 557722009173 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 557722009174 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722009175 catalytic residue [active] 557722009176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 557722009177 MOSC domain; Region: MOSC; pfam03473 557722009178 3-alpha domain; Region: 3-alpha; pfam03475 557722009179 LESGI-4 557722009180 sepiapterin reductase; Region: sepiapter_red; TIGR01500 557722009181 classical (c) SDRs; Region: SDR_c; cd05233 557722009182 NAD(P) binding site [chemical binding]; other site 557722009183 active site 557722009184 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 557722009185 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 557722009186 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 557722009187 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 557722009188 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 557722009189 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 557722009190 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 557722009191 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 557722009192 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 557722009193 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722009194 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722009195 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 557722009196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722009197 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557722009198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 557722009199 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722009200 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 557722009201 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557722009202 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 557722009203 active site 557722009204 NAD binding site [chemical binding]; other site 557722009205 metal binding site [ion binding]; metal-binding site 557722009206 amino acid transporter; Region: 2A0306; TIGR00909 557722009207 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 557722009208 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 557722009209 tetrameric interface [polypeptide binding]; other site 557722009210 NAD binding site [chemical binding]; other site 557722009211 catalytic residues [active] 557722009212 substrate binding site [chemical binding]; other site 557722009213 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 557722009214 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 557722009215 inhibitor-cofactor binding pocket; inhibition site 557722009216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722009217 catalytic residue [active] 557722009218 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 557722009219 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 557722009220 NAD binding site [chemical binding]; other site 557722009221 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 557722009222 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 557722009223 Na binding site [ion binding]; other site 557722009224 Protein of unknown function, DUF485; Region: DUF485; pfam04341 557722009225 acyl-CoA synthetase; Validated; Region: PRK08162 557722009226 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 557722009227 acyl-activating enzyme (AAE) consensus motif; other site 557722009228 putative active site [active] 557722009229 AMP binding site [chemical binding]; other site 557722009230 putative CoA binding site [chemical binding]; other site 557722009231 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557722009232 classical (c) SDRs; Region: SDR_c; cd05233 557722009233 NAD(P) binding site [chemical binding]; other site 557722009234 active site 557722009235 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722009236 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 557722009237 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 557722009238 active site 557722009239 Phosphotransferase enzyme family; Region: APH; pfam01636 557722009240 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 557722009241 putative active site [active] 557722009242 putative substrate binding site [chemical binding]; other site 557722009243 ATP binding site [chemical binding]; other site 557722009244 Propionate catabolism activator; Region: PrpR_N; pfam06506 557722009245 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 557722009246 PAS domain; Region: PAS_9; pfam13426 557722009247 putative active site [active] 557722009248 heme pocket [chemical binding]; other site 557722009249 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 557722009250 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722009251 Walker A motif; other site 557722009252 ATP binding site [chemical binding]; other site 557722009253 Walker B motif; other site 557722009254 arginine finger; other site 557722009255 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722009256 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 557722009257 mce related protein; Region: MCE; pfam02470 557722009258 mce related protein; Region: MCE; pfam02470 557722009259 mce related protein; Region: MCE; pfam02470 557722009260 mce related protein; Region: MCE; pfam02470 557722009261 mce related protein; Region: MCE; pfam02470 557722009262 mce related protein; Region: MCE; pfam02470 557722009263 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 557722009264 Paraquat-inducible protein A; Region: PqiA; pfam04403 557722009265 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557722009266 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 557722009267 dimer interface [polypeptide binding]; other site 557722009268 NADP binding site [chemical binding]; other site 557722009269 catalytic residues [active] 557722009270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 557722009271 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 557722009272 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 557722009273 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 557722009274 putative active site pocket [active] 557722009275 putative metal binding site [ion binding]; other site 557722009276 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 557722009277 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009278 putative substrate translocation pore; other site 557722009279 outer membrane porin, OprD family; Region: OprD; pfam03573 557722009280 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 557722009281 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 557722009282 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 557722009283 Amidohydrolase; Region: Amidohydro_2; pfam04909 557722009284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 557722009285 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 557722009286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 557722009287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009289 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 557722009290 dimerization interface [polypeptide binding]; other site 557722009291 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722009292 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 557722009293 substrate binding pocket [chemical binding]; other site 557722009294 membrane-bound complex binding site; other site 557722009295 hinge residues; other site 557722009296 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722009297 dimer interface [polypeptide binding]; other site 557722009298 conserved gate region; other site 557722009299 putative PBP binding loops; other site 557722009300 ABC-ATPase subunit interface; other site 557722009301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722009302 dimer interface [polypeptide binding]; other site 557722009303 conserved gate region; other site 557722009304 putative PBP binding loops; other site 557722009305 ABC-ATPase subunit interface; other site 557722009306 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 557722009307 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 557722009308 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 557722009309 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 557722009310 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557722009311 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 557722009312 Prostaglandin dehydrogenases; Region: PGDH; cd05288 557722009313 NAD(P) binding site [chemical binding]; other site 557722009314 substrate binding site [chemical binding]; other site 557722009315 dimer interface [polypeptide binding]; other site 557722009316 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722009317 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722009318 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 557722009319 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722009320 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557722009321 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 557722009322 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722009323 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 557722009324 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 557722009325 catalytic loop [active] 557722009326 iron binding site [ion binding]; other site 557722009327 FOG: CBS domain [General function prediction only]; Region: COG0517 557722009328 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 557722009329 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 557722009330 General stress protein [General function prediction only]; Region: GsiB; COG3729 557722009331 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 557722009332 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 557722009333 active site 557722009334 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 557722009335 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557722009336 NAD binding site [chemical binding]; other site 557722009337 catalytic Zn binding site [ion binding]; other site 557722009338 structural Zn binding site [ion binding]; other site 557722009339 Low affinity iron permease; Region: Iron_permease; pfam04120 557722009340 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 557722009341 dimanganese center [ion binding]; other site 557722009342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 557722009343 Predicted membrane protein [Function unknown]; Region: COG3205 557722009344 carboxylate-amine ligase; Provisional; Region: PRK13515 557722009345 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 557722009346 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 557722009347 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722009348 S-adenosylmethionine binding site [chemical binding]; other site 557722009349 Yip1 domain; Region: Yip1; cl17815 557722009350 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 557722009351 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557722009352 putative active site [active] 557722009353 heme pocket [chemical binding]; other site 557722009354 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557722009355 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 557722009356 putative active site [active] 557722009357 heme pocket [chemical binding]; other site 557722009358 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 557722009359 dimer interface [polypeptide binding]; other site 557722009360 phosphorylation site [posttranslational modification] 557722009361 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722009362 ATP binding site [chemical binding]; other site 557722009363 Mg2+ binding site [ion binding]; other site 557722009364 G-X-G motif; other site 557722009365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722009366 active site 557722009367 phosphorylation site [posttranslational modification] 557722009368 intermolecular recognition site; other site 557722009369 dimerization interface [polypeptide binding]; other site 557722009370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722009371 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 557722009372 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 557722009373 metal binding site [ion binding]; metal-binding site 557722009374 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 557722009375 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 557722009376 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557722009377 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722009378 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 557722009379 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 557722009380 glycogen synthase; Provisional; Region: glgA; PRK00654 557722009381 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 557722009382 ADP-binding pocket [chemical binding]; other site 557722009383 homodimer interface [polypeptide binding]; other site 557722009384 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 557722009385 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 557722009386 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 557722009387 catalytic site [active] 557722009388 active site 557722009389 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 557722009390 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 557722009391 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 557722009392 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557722009393 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 557722009394 active site 557722009395 catalytic site [active] 557722009396 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 557722009397 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 557722009398 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 557722009399 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 557722009400 active site 557722009401 catalytic site [active] 557722009402 FOG: CBS domain [General function prediction only]; Region: COG0517 557722009403 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 557722009404 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 557722009405 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557722009406 NAD binding site [chemical binding]; other site 557722009407 catalytic Zn binding site [ion binding]; other site 557722009408 structural Zn binding site [ion binding]; other site 557722009409 Protein of unknown function DUF72; Region: DUF72; pfam01904 557722009410 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 557722009411 putative catalytic site [active] 557722009412 putative metal binding site [ion binding]; other site 557722009413 putative phosphate binding site [ion binding]; other site 557722009414 cardiolipin synthase 2; Provisional; Region: PRK11263 557722009415 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 557722009416 putative active site [active] 557722009417 catalytic site [active] 557722009418 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557722009419 putative active site [active] 557722009420 catalytic site [active] 557722009421 Predicted integral membrane protein [Function unknown]; Region: COG0392 557722009422 glycogen branching enzyme; Provisional; Region: PRK05402 557722009423 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 557722009424 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 557722009425 active site 557722009426 catalytic site [active] 557722009427 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 557722009428 trehalose synthase; Region: treS_nterm; TIGR02456 557722009429 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 557722009430 active site 557722009431 catalytic site [active] 557722009432 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 557722009433 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 557722009434 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 557722009435 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 557722009436 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 557722009437 active site 557722009438 homodimer interface [polypeptide binding]; other site 557722009439 catalytic site [active] 557722009440 acceptor binding site [chemical binding]; other site 557722009441 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 557722009442 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 557722009443 putative DNA binding site [nucleotide binding]; other site 557722009444 putative homodimer interface [polypeptide binding]; other site 557722009445 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 557722009446 MgtC family; Region: MgtC; pfam02308 557722009447 hydroperoxidase II; Provisional; Region: katE; PRK11249 557722009448 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 557722009449 tetramer interface [polypeptide binding]; other site 557722009450 heme binding pocket [chemical binding]; other site 557722009451 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 557722009452 domain interactions; other site 557722009453 General stress protein [General function prediction only]; Region: GsiB; COG3729 557722009454 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 557722009455 homodimer interface [polypeptide binding]; other site 557722009456 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 557722009457 active site pocket [active] 557722009458 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 557722009459 short chain dehydrogenase; Provisional; Region: PRK06701 557722009460 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 557722009461 NAD binding site [chemical binding]; other site 557722009462 metal binding site [ion binding]; metal-binding site 557722009463 active site 557722009464 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 557722009465 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 557722009466 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 557722009467 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 557722009468 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 557722009469 active site 557722009470 DNA binding site [nucleotide binding] 557722009471 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 557722009472 DNA binding site [nucleotide binding] 557722009473 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 557722009474 nucleotide binding site [chemical binding]; other site 557722009475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 557722009476 active site 557722009477 phosphorylation site [posttranslational modification] 557722009478 intermolecular recognition site; other site 557722009479 dimerization interface [polypeptide binding]; other site 557722009480 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557722009481 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 557722009482 Predicted outer membrane protein [Function unknown]; Region: COG3652 557722009483 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 557722009484 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 557722009485 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557722009486 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557722009487 Fimbrial protein; Region: Fimbrial; cl01416 557722009488 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557722009489 PapC N-terminal domain; Region: PapC_N; pfam13954 557722009490 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557722009491 PapC C-terminal domain; Region: PapC_C; pfam13953 557722009492 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 557722009493 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557722009494 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557722009495 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 557722009496 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 557722009497 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 557722009498 Active Sites [active] 557722009499 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 557722009500 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557722009501 ParB-like nuclease domain; Region: ParBc; pfam02195 557722009502 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557722009503 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 557722009504 NAD(P) binding site [chemical binding]; other site 557722009505 catalytic residues [active] 557722009506 choline dehydrogenase; Validated; Region: PRK02106 557722009507 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722009508 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557722009509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009511 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 557722009512 putative effector binding pocket; other site 557722009513 dimerization interface [polypeptide binding]; other site 557722009514 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 557722009515 hydrophobic ligand binding site; other site 557722009516 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 557722009517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009518 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 557722009519 substrate binding pocket [chemical binding]; other site 557722009520 dimerization interface [polypeptide binding]; other site 557722009521 SnoaL-like domain; Region: SnoaL_2; pfam12680 557722009522 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557722009523 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 557722009524 tetramer interface [polypeptide binding]; other site 557722009525 catalytic Zn binding site [ion binding]; other site 557722009526 NADP binding site [chemical binding]; other site 557722009527 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 557722009528 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 557722009529 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 557722009530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722009531 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 557722009532 DNA binding site [nucleotide binding] 557722009533 active site 557722009534 Uncharacterized conserved protein [Function unknown]; Region: COG4336 557722009535 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009537 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 557722009538 dimerization interface [polypeptide binding]; other site 557722009539 benzoate transport; Region: 2A0115; TIGR00895 557722009540 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009541 putative substrate translocation pore; other site 557722009542 outer membrane porin, OprD family; Region: OprD; pfam03573 557722009543 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 557722009544 putative active site [active] 557722009545 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 557722009546 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 557722009547 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 557722009548 Predicted outer membrane protein [Function unknown]; Region: COG3652 557722009549 thiamine pyrophosphate protein; Provisional; Region: PRK08273 557722009550 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 557722009551 PYR/PP interface [polypeptide binding]; other site 557722009552 dimer interface [polypeptide binding]; other site 557722009553 tetramer interface [polypeptide binding]; other site 557722009554 TPP binding site [chemical binding]; other site 557722009555 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722009556 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 557722009557 TPP-binding site [chemical binding]; other site 557722009558 short chain dehydrogenase; Provisional; Region: PRK08267 557722009559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722009560 NAD(P) binding site [chemical binding]; other site 557722009561 active site 557722009562 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557722009563 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557722009564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 557722009565 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722009566 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722009567 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722009568 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722009569 FecR protein; Region: FecR; pfam04773 557722009570 RNA polymerase sigma factor; Provisional; Region: PRK12525 557722009571 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722009572 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 557722009573 DNA binding residues [nucleotide binding] 557722009574 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557722009575 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 557722009576 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722009577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009578 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 557722009579 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 557722009580 dimer interface [polypeptide binding]; other site 557722009581 active site 557722009582 non-prolyl cis peptide bond; other site 557722009583 insertion regions; other site 557722009584 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722009585 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722009586 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 557722009587 N-terminal plug; other site 557722009588 ligand-binding site [chemical binding]; other site 557722009589 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722009590 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722009591 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 557722009592 inter-subunit interface; other site 557722009593 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 557722009594 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 557722009595 active site 557722009596 dimer interface [polypeptide binding]; other site 557722009597 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 557722009598 Ligand Binding Site [chemical binding]; other site 557722009599 Molecular Tunnel; other site 557722009600 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557722009601 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 557722009602 [2Fe-2S] cluster binding site [ion binding]; other site 557722009603 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 557722009604 putative alpha subunit interface [polypeptide binding]; other site 557722009605 putative active site [active] 557722009606 putative substrate binding site [chemical binding]; other site 557722009607 Fe binding site [ion binding]; other site 557722009608 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722009609 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 557722009610 putative DNA binding site [nucleotide binding]; other site 557722009611 putative Zn2+ binding site [ion binding]; other site 557722009612 AsnC family; Region: AsnC_trans_reg; pfam01037 557722009613 arylformamidase; Region: trp_arylform; TIGR03035 557722009614 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 557722009615 kynureninase; Region: kynureninase; TIGR01814 557722009616 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722009617 catalytic residue [active] 557722009618 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557722009619 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722009620 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009622 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 557722009623 dimerization interface [polypeptide binding]; other site 557722009624 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557722009625 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 557722009626 putative active site [active] 557722009627 catalytic triad [active] 557722009628 putative dimer interface [polypeptide binding]; other site 557722009629 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 557722009630 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557722009631 Na binding site [ion binding]; other site 557722009632 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 557722009633 PAS domain S-box; Region: sensory_box; TIGR00229 557722009634 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 557722009635 putative active site [active] 557722009636 heme pocket [chemical binding]; other site 557722009637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722009638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722009639 metal binding site [ion binding]; metal-binding site 557722009640 active site 557722009641 I-site; other site 557722009642 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 557722009643 elongation factor G; Reviewed; Region: PRK00007 557722009644 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 557722009645 G1 box; other site 557722009646 putative GEF interaction site [polypeptide binding]; other site 557722009647 GTP/Mg2+ binding site [chemical binding]; other site 557722009648 Switch I region; other site 557722009649 G2 box; other site 557722009650 G3 box; other site 557722009651 Switch II region; other site 557722009652 G4 box; other site 557722009653 G5 box; other site 557722009654 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 557722009655 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 557722009656 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 557722009657 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722009658 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 557722009659 N-terminal plug; other site 557722009660 ligand-binding site [chemical binding]; other site 557722009661 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 557722009662 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 557722009663 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 557722009664 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 557722009665 MFS_1 like family; Region: MFS_1_like; pfam12832 557722009666 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 557722009667 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 557722009668 motif II; other site 557722009669 Uncharacterized conserved protein [Function unknown]; Region: COG1434 557722009670 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 557722009671 putative active site [active] 557722009672 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 557722009673 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 557722009674 Multicopper oxidase; Region: Cu-oxidase; pfam00394 557722009675 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 557722009676 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 557722009677 Uncharacterized conserved protein [Function unknown]; Region: COG3673 557722009678 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 557722009679 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557722009680 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722009681 catalytic residue [active] 557722009682 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 557722009683 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557722009684 Walker A/P-loop; other site 557722009685 ATP binding site [chemical binding]; other site 557722009686 Q-loop/lid; other site 557722009687 ABC transporter signature motif; other site 557722009688 Walker B; other site 557722009689 D-loop; other site 557722009690 H-loop/switch region; other site 557722009691 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557722009692 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557722009693 Walker A/P-loop; other site 557722009694 ATP binding site [chemical binding]; other site 557722009695 Q-loop/lid; other site 557722009696 ABC transporter signature motif; other site 557722009697 Walker B; other site 557722009698 D-loop; other site 557722009699 H-loop/switch region; other site 557722009700 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557722009701 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 557722009702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722009703 dimer interface [polypeptide binding]; other site 557722009704 conserved gate region; other site 557722009705 ABC-ATPase subunit interface; other site 557722009706 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 557722009707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722009708 dimer interface [polypeptide binding]; other site 557722009709 conserved gate region; other site 557722009710 ABC-ATPase subunit interface; other site 557722009711 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 557722009712 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 557722009713 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 557722009714 N-terminal plug; other site 557722009715 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722009716 ligand-binding site [chemical binding]; other site 557722009717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009719 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 557722009720 putative effector binding pocket; other site 557722009721 dimerization interface [polypeptide binding]; other site 557722009722 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722009723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009724 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 557722009725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009726 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 557722009727 dimerization interface [polypeptide binding]; other site 557722009728 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 557722009729 active site clefts [active] 557722009730 zinc binding site [ion binding]; other site 557722009731 dimer interface [polypeptide binding]; other site 557722009732 cyanate hydratase; Validated; Region: PRK02866 557722009733 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 557722009734 oligomer interface [polypeptide binding]; other site 557722009735 active site 557722009736 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722009737 FecR protein; Region: FecR; pfam04773 557722009738 RNA polymerase sigma factor; Provisional; Region: PRK12525 557722009739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722009740 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 557722009741 DNA binding residues [nucleotide binding] 557722009742 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 557722009743 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 557722009744 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557722009745 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 557722009746 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722009747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722009748 Haemolytic domain; Region: Haemolytic; pfam01809 557722009749 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 557722009750 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557722009751 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557722009752 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 557722009753 probable active site [active] 557722009754 serine/threonine transporter SstT; Provisional; Region: PRK13628 557722009755 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557722009756 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557722009757 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557722009758 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557722009759 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722009760 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 557722009761 Predicted membrane protein [Function unknown]; Region: COG4392 557722009762 Methyltransferase domain; Region: Methyltransf_23; pfam13489 557722009763 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722009764 thiamine pyrophosphate protein; Validated; Region: PRK08199 557722009765 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557722009766 PYR/PP interface [polypeptide binding]; other site 557722009767 dimer interface [polypeptide binding]; other site 557722009768 TPP binding site [chemical binding]; other site 557722009769 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722009770 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 557722009771 TPP-binding site [chemical binding]; other site 557722009772 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 557722009773 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 557722009774 FAD binding pocket [chemical binding]; other site 557722009775 FAD binding motif [chemical binding]; other site 557722009776 phosphate binding motif [ion binding]; other site 557722009777 NAD binding pocket [chemical binding]; other site 557722009778 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 557722009779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722009780 DNA-binding site [nucleotide binding]; DNA binding site 557722009781 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 557722009782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722009783 homodimer interface [polypeptide binding]; other site 557722009784 catalytic residue [active] 557722009785 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 557722009786 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722009787 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 557722009788 putative DNA binding site [nucleotide binding]; other site 557722009789 putative Zn2+ binding site [ion binding]; other site 557722009790 AsnC family; Region: AsnC_trans_reg; pfam01037 557722009791 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 557722009792 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 557722009793 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722009794 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 557722009795 active site 557722009796 metal binding site [ion binding]; metal-binding site 557722009797 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 557722009798 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 557722009799 active site 557722009800 tetramer interface; other site 557722009801 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 557722009802 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557722009803 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557722009804 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 557722009805 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 557722009806 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 557722009807 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722009808 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722009809 multidrug efflux protein; Reviewed; Region: PRK09577 557722009810 Protein export membrane protein; Region: SecD_SecF; cl14618 557722009811 SdiA-regulated; Region: SdiA-regulated; pfam06977 557722009812 SdiA-regulated; Region: SdiA-regulated; cd09971 557722009813 putative active site [active] 557722009814 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 557722009815 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 557722009816 DNA binding residues [nucleotide binding] 557722009817 putative dimer interface [polypeptide binding]; other site 557722009818 isovaleryl-CoA dehydrogenase; Region: PLN02519 557722009819 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 557722009820 substrate binding site [chemical binding]; other site 557722009821 FAD binding site [chemical binding]; other site 557722009822 catalytic base [active] 557722009823 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 557722009824 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 557722009825 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 557722009826 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 557722009827 substrate binding site [chemical binding]; other site 557722009828 oxyanion hole (OAH) forming residues; other site 557722009829 trimer interface [polypeptide binding]; other site 557722009830 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 557722009831 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722009832 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722009833 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557722009834 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 557722009835 carboxyltransferase (CT) interaction site; other site 557722009836 biotinylation site [posttranslational modification]; other site 557722009837 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 557722009838 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 557722009839 active site 557722009840 catalytic residues [active] 557722009841 metal binding site [ion binding]; metal-binding site 557722009842 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 557722009843 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557722009844 Bacterial transcriptional regulator; Region: IclR; pfam01614 557722009845 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 557722009846 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 557722009847 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 557722009848 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 557722009849 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 557722009850 C-terminal domain interface [polypeptide binding]; other site 557722009851 GSH binding site (G-site) [chemical binding]; other site 557722009852 maleylacetoacetate isomerase; Region: maiA; TIGR01262 557722009853 putative dimer interface [polypeptide binding]; other site 557722009854 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 557722009855 dimer interface [polypeptide binding]; other site 557722009856 N-terminal domain interface [polypeptide binding]; other site 557722009857 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 557722009858 benzoate transport; Region: 2A0115; TIGR00895 557722009859 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009860 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009861 PAS domain; Region: PAS; smart00091 557722009862 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 557722009863 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722009864 Walker B motif; other site 557722009865 arginine finger; other site 557722009866 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722009867 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 557722009868 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 557722009869 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 557722009870 NAD binding site [chemical binding]; other site 557722009871 homotetramer interface [polypeptide binding]; other site 557722009872 homodimer interface [polypeptide binding]; other site 557722009873 substrate binding site [chemical binding]; other site 557722009874 active site 557722009875 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 557722009876 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 557722009877 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 557722009878 dimer interface [polypeptide binding]; other site 557722009879 active site 557722009880 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 557722009881 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 557722009882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722009883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722009884 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 557722009885 putative dimerization interface [polypeptide binding]; other site 557722009886 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 557722009887 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 557722009888 acyl-activating enzyme (AAE) consensus motif; other site 557722009889 putative AMP binding site [chemical binding]; other site 557722009890 putative active site [active] 557722009891 putative CoA binding site [chemical binding]; other site 557722009892 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 557722009893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 557722009894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3554 557722009895 major facilitator superfamily transporter; Provisional; Region: PRK05122 557722009896 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722009897 putative substrate translocation pore; other site 557722009898 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 557722009899 PAS domain S-box; Region: sensory_box; TIGR00229 557722009900 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 557722009901 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 557722009902 dimer interface [polypeptide binding]; other site 557722009903 phosphorylation site [posttranslational modification] 557722009904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722009905 ATP binding site [chemical binding]; other site 557722009906 G-X-G motif; other site 557722009907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722009908 active site 557722009909 phosphorylation site [posttranslational modification] 557722009910 intermolecular recognition site; other site 557722009911 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 557722009912 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557722009913 putative active site [active] 557722009914 metal binding site [ion binding]; metal-binding site 557722009915 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 557722009916 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722009917 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 557722009918 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 557722009919 FeS/SAM binding site; other site 557722009920 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 557722009921 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 557722009922 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 557722009923 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 557722009924 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 557722009925 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 557722009926 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557722009927 NAD(P) binding site [chemical binding]; other site 557722009928 catalytic residues [active] 557722009929 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722009930 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722009931 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 557722009932 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 557722009933 dimer interface [polypeptide binding]; other site 557722009934 Trp docking motif [polypeptide binding]; other site 557722009935 active site 557722009936 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 557722009937 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 557722009938 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 557722009939 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 557722009940 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 557722009941 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 557722009942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722009943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722009944 active site 557722009945 phosphorylation site [posttranslational modification] 557722009946 intermolecular recognition site; other site 557722009947 dimerization interface [polypeptide binding]; other site 557722009948 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 557722009949 DNA binding residues [nucleotide binding] 557722009950 dimerization interface [polypeptide binding]; other site 557722009951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 557722009952 Histidine kinase; Region: HisKA_3; pfam07730 557722009953 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722009954 ATP binding site [chemical binding]; other site 557722009955 Mg2+ binding site [ion binding]; other site 557722009956 G-X-G motif; other site 557722009957 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722009958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722009959 active site 557722009960 phosphorylation site [posttranslational modification] 557722009961 intermolecular recognition site; other site 557722009962 dimerization interface [polypeptide binding]; other site 557722009963 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 557722009964 DNA binding residues [nucleotide binding] 557722009965 dimerization interface [polypeptide binding]; other site 557722009966 PAS fold; Region: PAS_7; pfam12860 557722009967 PAS fold; Region: PAS_7; pfam12860 557722009968 PAS fold; Region: PAS_4; pfam08448 557722009969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722009970 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 557722009971 dimer interface [polypeptide binding]; other site 557722009972 phosphorylation site [posttranslational modification] 557722009973 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722009974 ATP binding site [chemical binding]; other site 557722009975 Mg2+ binding site [ion binding]; other site 557722009976 G-X-G motif; other site 557722009977 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722009978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722009979 active site 557722009980 phosphorylation site [posttranslational modification] 557722009981 intermolecular recognition site; other site 557722009982 dimerization interface [polypeptide binding]; other site 557722009983 Uncharacterized conserved protein [Function unknown]; Region: COG3287 557722009984 FIST N domain; Region: FIST; pfam08495 557722009985 FIST C domain; Region: FIST_C; pfam10442 557722009986 Gram-negative porin; Region: Porin_4; pfam13609 557722009987 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 557722009988 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557722009989 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557722009990 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 557722009991 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 557722009992 Sulfatase; Region: Sulfatase; pfam00884 557722009993 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 557722009994 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 557722009995 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 557722009996 putative substrate binding pocket [chemical binding]; other site 557722009997 trimer interface [polypeptide binding]; other site 557722009998 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 557722009999 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722010000 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722010001 ABC transporter; Region: ABC_tran_2; pfam12848 557722010002 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722010003 azoreductase; Reviewed; Region: PRK00170 557722010004 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722010005 LysR family transcriptional regulator; Provisional; Region: PRK14997 557722010006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722010007 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 557722010008 dimerization interface [polypeptide binding]; other site 557722010009 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 557722010010 DNA-binding site [nucleotide binding]; DNA binding site 557722010011 RNA-binding motif; other site 557722010012 Predicted membrane protein [Function unknown]; Region: COG3326 557722010013 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 557722010014 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 557722010015 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 557722010016 AAA domain; Region: AAA_28; pfam13521 557722010017 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 557722010018 putative active site [active] 557722010019 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 557722010020 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557722010021 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 557722010022 substrate binding site [chemical binding]; other site 557722010023 dimer interface [polypeptide binding]; other site 557722010024 ATP binding site [chemical binding]; other site 557722010025 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557722010026 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557722010027 DNA binding site [nucleotide binding] 557722010028 domain linker motif; other site 557722010029 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 557722010030 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557722010031 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 557722010032 TM-ABC transporter signature motif; other site 557722010033 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 557722010034 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557722010035 Walker A/P-loop; other site 557722010036 ATP binding site [chemical binding]; other site 557722010037 Q-loop/lid; other site 557722010038 ABC transporter signature motif; other site 557722010039 Walker B; other site 557722010040 D-loop; other site 557722010041 H-loop/switch region; other site 557722010042 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557722010043 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 557722010044 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 557722010045 ligand binding site [chemical binding]; other site 557722010046 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722010047 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722010048 Walker A motif; other site 557722010049 ATP binding site [chemical binding]; other site 557722010050 Walker B motif; other site 557722010051 arginine finger; other site 557722010052 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722010053 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 557722010054 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 557722010055 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722010056 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557722010057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722010058 Coenzyme A binding pocket [chemical binding]; other site 557722010059 Peptidase_C39 like family; Region: DUF3335; pfam11814 557722010060 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 557722010061 putative heme binding pocket [chemical binding]; other site 557722010062 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722010063 AAA domain; Region: AAA_23; pfam13476 557722010064 Walker A/P-loop; other site 557722010065 ATP binding site [chemical binding]; other site 557722010066 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 557722010067 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557722010068 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557722010069 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722010070 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 557722010071 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 557722010072 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557722010073 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557722010074 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 557722010075 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 557722010076 putative active site [active] 557722010077 heme pocket [chemical binding]; other site 557722010078 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 557722010079 putative active site [active] 557722010080 heme pocket [chemical binding]; other site 557722010081 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557722010082 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722010083 dimer interface [polypeptide binding]; other site 557722010084 putative CheW interface [polypeptide binding]; other site 557722010085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557722010086 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557722010087 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 557722010088 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 557722010089 THF binding site; other site 557722010090 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 557722010091 substrate binding site [chemical binding]; other site 557722010092 THF binding site; other site 557722010093 zinc-binding site [ion binding]; other site 557722010094 Uncharacterized conserved protein [Function unknown]; Region: COG1944 557722010095 YcaO-like family; Region: YcaO; pfam02624 557722010096 Uncharacterized conserved protein [Function unknown]; Region: COG4744 557722010097 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 557722010098 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 557722010099 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 557722010100 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 557722010101 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 557722010102 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 557722010103 N-terminal plug; other site 557722010104 ligand-binding site [chemical binding]; other site 557722010105 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722010106 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722010107 S-adenosylmethionine binding site [chemical binding]; other site 557722010108 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 557722010109 ATP cone domain; Region: ATP-cone; pfam03477 557722010110 Class III ribonucleotide reductase; Region: RNR_III; cd01675 557722010111 effector binding site; other site 557722010112 active site 557722010113 Zn binding site [ion binding]; other site 557722010114 glycine loop; other site 557722010115 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 557722010116 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 557722010117 FeS/SAM binding site; other site 557722010118 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722010119 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722010120 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 557722010121 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 557722010122 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 557722010123 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 557722010124 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 557722010125 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 557722010126 RNA polymerase sigma factor; Provisional; Region: PRK12528 557722010127 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722010128 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 557722010129 DNA binding residues [nucleotide binding] 557722010130 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722010131 FecR protein; Region: FecR; pfam04773 557722010132 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557722010133 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 557722010134 N-terminal plug; other site 557722010135 ligand-binding site [chemical binding]; other site 557722010136 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557722010137 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 557722010138 RNA polymerase Rpb5, C-terminal domain; Region: RNA_pol_Rpb5_C; cl00883 557722010139 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557722010140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722010141 putative substrate translocation pore; other site 557722010142 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722010143 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 557722010144 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 557722010145 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 557722010146 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 557722010147 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 557722010148 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 557722010149 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 557722010150 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 557722010151 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557722010152 Glutamine amidotransferase class-I; Region: GATase; pfam00117 557722010153 glutamine binding [chemical binding]; other site 557722010154 catalytic triad [active] 557722010155 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 557722010156 hydrophobic substrate binding pocket; other site 557722010157 Isochorismatase family; Region: Isochorismatase; pfam00857 557722010158 active site 557722010159 conserved cis-peptide bond; other site 557722010160 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 557722010161 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 557722010162 Phenazine biosynthesis protein A/B; Region: PHZA_PHZB; pfam03284 557722010163 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 557722010164 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557722010165 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 557722010166 DNA binding residues [nucleotide binding] 557722010167 dimerization interface [polypeptide binding]; other site 557722010168 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 557722010169 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 557722010170 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 557722010171 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 557722010172 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 557722010173 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 557722010174 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 557722010175 active site 557722010176 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722010177 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 557722010178 putative C-terminal domain interface [polypeptide binding]; other site 557722010179 putative GSH binding site (G-site) [chemical binding]; other site 557722010180 putative dimer interface [polypeptide binding]; other site 557722010181 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 557722010182 putative N-terminal domain interface [polypeptide binding]; other site 557722010183 putative dimer interface [polypeptide binding]; other site 557722010184 putative substrate binding pocket (H-site) [chemical binding]; other site 557722010185 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557722010186 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 557722010187 dimer interface [polypeptide binding]; other site 557722010188 active site 557722010189 catalytic residue [active] 557722010190 DNA polymerase II; Reviewed; Region: PRK05762 557722010191 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 557722010192 active site 557722010193 catalytic site [active] 557722010194 substrate binding site [chemical binding]; other site 557722010195 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 557722010196 active site 557722010197 metal-binding site 557722010198 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722010199 Coenzyme A binding pocket [chemical binding]; other site 557722010200 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 557722010201 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 557722010202 sequence-specific DNA binding site [nucleotide binding]; other site 557722010203 salt bridge; other site 557722010204 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 557722010205 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 557722010206 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557722010207 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 557722010208 catalytic loop [active] 557722010209 iron binding site [ion binding]; other site 557722010210 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557722010211 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557722010212 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722010213 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557722010214 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722010215 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722010216 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 557722010217 non-specific DNA binding site [nucleotide binding]; other site 557722010218 salt bridge; other site 557722010219 sequence-specific DNA binding site [nucleotide binding]; other site 557722010220 HD domain; Region: HD_3; pfam13023 557722010221 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557722010222 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722010223 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722010224 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 557722010225 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 557722010226 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557722010227 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722010228 Walker A/P-loop; other site 557722010229 ATP binding site [chemical binding]; other site 557722010230 Q-loop/lid; other site 557722010231 ABC transporter signature motif; other site 557722010232 Walker B; other site 557722010233 D-loop; other site 557722010234 H-loop/switch region; other site 557722010235 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557722010236 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557722010237 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557722010238 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 557722010239 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 557722010240 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 557722010241 Cl binding site [ion binding]; other site 557722010242 oligomer interface [polypeptide binding]; other site 557722010243 EcsC protein family; Region: EcsC; pfam12787 557722010244 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557722010245 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722010246 acyl carrier protein; Provisional; Region: acpP; PRK00982 557722010247 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 557722010248 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722010249 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722010250 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722010251 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557722010252 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 557722010253 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 557722010254 DEAD_2; Region: DEAD_2; pfam06733 557722010255 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 557722010256 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 557722010257 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 557722010258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722010259 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 557722010260 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557722010261 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722010262 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557722010263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722010264 dimer interface [polypeptide binding]; other site 557722010265 conserved gate region; other site 557722010266 putative PBP binding loops; other site 557722010267 ABC-ATPase subunit interface; other site 557722010268 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 557722010269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722010270 Walker A/P-loop; other site 557722010271 ATP binding site [chemical binding]; other site 557722010272 Q-loop/lid; other site 557722010273 ABC transporter signature motif; other site 557722010274 Walker B; other site 557722010275 D-loop; other site 557722010276 H-loop/switch region; other site 557722010277 TOBE domain; Region: TOBE; cl01440 557722010278 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 557722010279 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 557722010280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722010281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722010282 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 557722010283 putative effector binding pocket; other site 557722010284 dimerization interface [polypeptide binding]; other site 557722010285 Streptomycin 6-kinase [Defense mechanisms]; Region: StrB; COG3570 557722010286 Protein of unknown function (DUF808); Region: DUF808; pfam05661 557722010287 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 557722010288 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557722010289 Low-spin heme binding site [chemical binding]; other site 557722010290 Putative water exit pathway; other site 557722010291 Binuclear center (active site) [active] 557722010292 Putative proton exit pathway; other site 557722010293 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 557722010294 HPP family; Region: HPP; pfam04982 557722010295 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 557722010296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722010297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722010298 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722010299 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722010300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722010301 metal binding site [ion binding]; metal-binding site 557722010302 active site 557722010303 I-site; other site 557722010304 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557722010305 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 557722010306 conserved cys residue [active] 557722010307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722010308 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722010309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 557722010310 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 557722010311 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722010312 putative substrate translocation pore; other site 557722010313 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 557722010314 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 557722010315 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 557722010316 Cytochrome c; Region: Cytochrom_C; cl11414 557722010317 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 557722010318 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 557722010319 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 557722010320 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 557722010321 substrate binding pocket [chemical binding]; other site 557722010322 dimer interface [polypeptide binding]; other site 557722010323 inhibitor binding site; inhibition site 557722010324 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 557722010325 B12 binding site [chemical binding]; other site 557722010326 cobalt ligand [ion binding]; other site 557722010327 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 557722010328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 557722010329 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 557722010330 putative deacylase active site [active] 557722010331 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 557722010332 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 557722010333 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 557722010334 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 557722010335 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557722010336 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557722010337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 557722010338 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722010339 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722010340 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 557722010341 CoenzymeA binding site [chemical binding]; other site 557722010342 subunit interaction site [polypeptide binding]; other site 557722010343 PHB binding site; other site 557722010344 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 557722010345 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 557722010346 NADP binding site [chemical binding]; other site 557722010347 dimer interface [polypeptide binding]; other site 557722010348 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 557722010349 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 557722010350 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 557722010351 tandem repeat interface [polypeptide binding]; other site 557722010352 oligomer interface [polypeptide binding]; other site 557722010353 active site residues [active] 557722010354 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 557722010355 catalytic core [active] 557722010356 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 557722010357 Phosphotransferase enzyme family; Region: APH; pfam01636 557722010358 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 557722010359 putative active site [active] 557722010360 putative substrate binding site [chemical binding]; other site 557722010361 ATP binding site [chemical binding]; other site 557722010362 short chain dehydrogenase; Provisional; Region: PRK07035 557722010363 classical (c) SDRs; Region: SDR_c; cd05233 557722010364 NAD(P) binding site [chemical binding]; other site 557722010365 active site 557722010366 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557722010367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722010368 NAD(P) binding site [chemical binding]; other site 557722010369 active site 557722010370 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557722010371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722010372 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 557722010373 dimerization interface [polypeptide binding]; other site 557722010374 substrate binding pocket [chemical binding]; other site 557722010375 hypothetical protein; Provisional; Region: PRK10621 557722010376 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557722010377 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 557722010378 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 557722010379 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 557722010380 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 557722010381 putative NADH binding site [chemical binding]; other site 557722010382 putative active site [active] 557722010383 nudix motif; other site 557722010384 putative metal binding site [ion binding]; other site 557722010385 enoyl-CoA hydratase; Provisional; Region: PRK06142 557722010386 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 557722010387 substrate binding site [chemical binding]; other site 557722010388 oxyanion hole (OAH) forming residues; other site 557722010389 trimer interface [polypeptide binding]; other site 557722010390 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 557722010391 arginine:agmatin antiporter; Provisional; Region: PRK10644 557722010392 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 557722010393 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 557722010394 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 557722010395 homodimer interface [polypeptide binding]; other site 557722010396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722010397 catalytic residue [active] 557722010398 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 557722010399 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 557722010400 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 557722010401 active site 557722010402 catalytic site [active] 557722010403 substrate binding site [chemical binding]; other site 557722010404 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 557722010405 RNA/DNA hybrid binding site [nucleotide binding]; other site 557722010406 active site 557722010407 Methyltransferase domain; Region: Methyltransf_11; pfam08241 557722010408 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 557722010409 MltD lipid attachment motif; Region: MLTD_N; pfam06474 557722010410 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 557722010411 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 557722010412 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722010413 catalytic residue [active] 557722010414 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722010415 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722010416 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722010417 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 557722010418 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 557722010419 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 557722010420 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 557722010421 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 557722010422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722010423 dimer interface [polypeptide binding]; other site 557722010424 conserved gate region; other site 557722010425 putative PBP binding loops; other site 557722010426 ABC-ATPase subunit interface; other site 557722010427 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 557722010428 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 557722010429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722010430 dimer interface [polypeptide binding]; other site 557722010431 conserved gate region; other site 557722010432 putative PBP binding loops; other site 557722010433 ABC-ATPase subunit interface; other site 557722010434 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 557722010435 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557722010436 Walker A/P-loop; other site 557722010437 ATP binding site [chemical binding]; other site 557722010438 Q-loop/lid; other site 557722010439 ABC transporter signature motif; other site 557722010440 Walker B; other site 557722010441 D-loop; other site 557722010442 H-loop/switch region; other site 557722010443 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557722010444 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557722010445 Walker A/P-loop; other site 557722010446 ATP binding site [chemical binding]; other site 557722010447 Q-loop/lid; other site 557722010448 ABC transporter signature motif; other site 557722010449 Walker B; other site 557722010450 D-loop; other site 557722010451 H-loop/switch region; other site 557722010452 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557722010453 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 557722010454 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 557722010455 NAD binding site [chemical binding]; other site 557722010456 homotetramer interface [polypeptide binding]; other site 557722010457 homodimer interface [polypeptide binding]; other site 557722010458 substrate binding site [chemical binding]; other site 557722010459 active site 557722010460 periplasmic folding chaperone; Provisional; Region: PRK10788 557722010461 SurA N-terminal domain; Region: SurA_N_3; pfam13624 557722010462 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557722010463 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 557722010464 IHF dimer interface [polypeptide binding]; other site 557722010465 IHF - DNA interface [nucleotide binding]; other site 557722010466 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 557722010467 Found in ATP-dependent protease La (LON); Region: LON; smart00464 557722010468 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722010469 Walker A motif; other site 557722010470 ATP binding site [chemical binding]; other site 557722010471 Walker B motif; other site 557722010472 arginine finger; other site 557722010473 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557722010474 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 557722010475 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 557722010476 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722010477 Walker A motif; other site 557722010478 ATP binding site [chemical binding]; other site 557722010479 Walker B motif; other site 557722010480 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557722010481 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 557722010482 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 557722010483 oligomer interface [polypeptide binding]; other site 557722010484 active site residues [active] 557722010485 trigger factor; Provisional; Region: tig; PRK01490 557722010486 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557722010487 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 557722010488 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 557722010489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722010490 active site 557722010491 phosphorylation site [posttranslational modification] 557722010492 intermolecular recognition site; other site 557722010493 dimerization interface [polypeptide binding]; other site 557722010494 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 557722010495 DNA binding site [nucleotide binding] 557722010496 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 557722010497 dimerization interface [polypeptide binding]; other site 557722010498 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 557722010499 dimer interface [polypeptide binding]; other site 557722010500 phosphorylation site [posttranslational modification] 557722010501 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722010502 ATP binding site [chemical binding]; other site 557722010503 Mg2+ binding site [ion binding]; other site 557722010504 G-X-G motif; other site 557722010505 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557722010506 Beta-lactamase; Region: Beta-lactamase; pfam00144 557722010507 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 557722010508 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 557722010509 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 557722010510 homodimer interface [polypeptide binding]; other site 557722010511 NADP binding site [chemical binding]; other site 557722010512 substrate binding site [chemical binding]; other site 557722010513 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 557722010514 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557722010515 active site 557722010516 HIGH motif; other site 557722010517 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557722010518 KMSKS motif; other site 557722010519 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 557722010520 tRNA binding surface [nucleotide binding]; other site 557722010521 anticodon binding site; other site 557722010522 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 557722010523 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557722010524 active site 557722010525 HIGH motif; other site 557722010526 nucleotide binding site [chemical binding]; other site 557722010527 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 557722010528 KMSKS motif; other site 557722010529 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 557722010530 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 557722010531 substrate binding site [chemical binding]; other site 557722010532 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557722010533 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 557722010534 putative active site [active] 557722010535 putative metal binding site [ion binding]; other site 557722010536 SPFH domain / Band 7 family; Region: Band_7; pfam01145 557722010537 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 557722010538 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 557722010539 active site 557722010540 dinuclear metal binding site [ion binding]; other site 557722010541 dimerization interface [polypeptide binding]; other site 557722010542 universal stress protein UspE; Provisional; Region: PRK11175 557722010543 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 557722010544 Ligand Binding Site [chemical binding]; other site 557722010545 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 557722010546 Ligand Binding Site [chemical binding]; other site 557722010547 Predicted Fe-S protein [General function prediction only]; Region: COG3313 557722010548 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 557722010549 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 557722010550 substrate binding site [chemical binding]; other site 557722010551 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 557722010552 substrate binding site [chemical binding]; other site 557722010553 ligand binding site [chemical binding]; other site 557722010554 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 557722010555 NMT1-like family; Region: NMT1_2; pfam13379 557722010556 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 557722010557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722010558 active site 557722010559 phosphorylation site [posttranslational modification] 557722010560 intermolecular recognition site; other site 557722010561 dimerization interface [polypeptide binding]; other site 557722010562 ANTAR domain; Region: ANTAR; pfam03861 557722010563 Alginate lyase; Region: Alginate_lyase2; pfam08787 557722010564 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 557722010565 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722010566 putative substrate translocation pore; other site 557722010567 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 557722010568 Protein kinase domain; Region: Pkinase; pfam00069 557722010569 Catalytic domain of Protein Kinases; Region: PKc; cd00180 557722010570 active site 557722010571 ATP binding site [chemical binding]; other site 557722010572 substrate binding site [chemical binding]; other site 557722010573 activation loop (A-loop); other site 557722010574 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 557722010575 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722010576 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 557722010577 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 557722010578 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557722010579 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 557722010580 [2Fe-2S] cluster binding site [ion binding]; other site 557722010581 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 557722010582 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 557722010583 [4Fe-4S] binding site [ion binding]; other site 557722010584 molybdopterin cofactor binding site; other site 557722010585 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 557722010586 molybdopterin cofactor binding site; other site 557722010587 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 557722010588 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 557722010589 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 557722010590 active site 557722010591 SAM binding site [chemical binding]; other site 557722010592 homodimer interface [polypeptide binding]; other site 557722010593 OprF membrane domain; Region: OprF; pfam05736 557722010594 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722010595 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722010596 ligand binding site [chemical binding]; other site 557722010597 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 557722010598 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722010599 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 557722010600 DNA binding residues [nucleotide binding] 557722010601 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722010602 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 557722010603 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 557722010604 Cl binding site [ion binding]; other site 557722010605 oligomer interface [polypeptide binding]; other site 557722010606 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 557722010607 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722010608 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557722010609 phosphoenolpyruvate synthase; Validated; Region: PRK06464 557722010610 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 557722010611 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557722010612 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557722010613 PEP synthetase regulatory protein; Provisional; Region: PRK05339 557722010614 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 557722010615 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 557722010616 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 557722010617 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 557722010618 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 557722010619 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 557722010620 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 557722010621 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 557722010622 putative active site [active] 557722010623 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 557722010624 AAA ATPase domain; Region: AAA_16; pfam13191 557722010625 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 557722010626 DNA binding residues [nucleotide binding] 557722010627 dimerization interface [polypeptide binding]; other site 557722010628 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 557722010629 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 557722010630 DNA binding residues [nucleotide binding] 557722010631 dimerization interface [polypeptide binding]; other site 557722010632 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 557722010633 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 557722010634 chorismate binding enzyme; Region: Chorismate_bind; cl10555 557722010635 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 557722010636 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557722010637 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 557722010638 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 557722010639 Active Sites [active] 557722010640 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 557722010641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722010642 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 557722010643 substrate binding site [chemical binding]; other site 557722010644 dimerization interface [polypeptide binding]; other site 557722010645 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 557722010646 Ligand Binding Site [chemical binding]; other site 557722010647 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 557722010648 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557722010649 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 557722010650 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 557722010651 catalytic residues [active] 557722010652 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 557722010653 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557722010654 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 557722010655 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 557722010656 substrate binding site [chemical binding]; other site 557722010657 oxyanion hole (OAH) forming residues; other site 557722010658 trimer interface [polypeptide binding]; other site 557722010659 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 557722010660 ADP-ribose binding site [chemical binding]; other site 557722010661 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557722010662 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557722010663 catalytic triad [active] 557722010664 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 557722010665 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 557722010666 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 557722010667 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722010668 active site 557722010669 catalytic tetrad [active] 557722010670 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722010671 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722010672 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 557722010673 putative effector binding pocket; other site 557722010674 putative dimerization interface [polypeptide binding]; other site 557722010675 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 557722010676 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 557722010677 substrate binding site [chemical binding]; other site 557722010678 oxyanion hole (OAH) forming residues; other site 557722010679 trimer interface [polypeptide binding]; other site 557722010680 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557722010681 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557722010682 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 557722010683 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 557722010684 dimer interface [polypeptide binding]; other site 557722010685 active site 557722010686 Predicted permeases [General function prediction only]; Region: COG0679 557722010687 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722010688 Cytochrome c; Region: Cytochrom_C; pfam00034 557722010689 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 557722010690 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 557722010691 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557722010692 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 557722010693 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557722010694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 557722010695 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 557722010696 Uncharacterized conserved protein [Function unknown]; Region: COG2308 557722010697 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557722010698 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557722010699 catalytic triad [active] 557722010700 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 557722010701 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 557722010702 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 557722010703 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 557722010704 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722010705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722010706 metal binding site [ion binding]; metal-binding site 557722010707 active site 557722010708 I-site; other site 557722010709 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 557722010710 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 557722010711 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 557722010712 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 557722010713 Switch II region; other site 557722010714 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 557722010715 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 557722010716 Flagellar assembly protein FliH; Region: FliH; pfam02108 557722010717 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 557722010718 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 557722010719 type III secretion apparatus protein, YscI/HrpB, C-terminal domain; Region: yscI_hrpB_dom; TIGR02497 557722010720 type III secretion effector, YopR family; Region: type_III_yopR; TIGR02509 557722010721 Bacterial type II secretion system chaperone protein (type_III_yscG); Region: Type_III_YscG; pfam09477 557722010722 Type III secretion needle MxiH like; Region: MxiH; cl09641 557722010723 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 557722010724 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 557722010725 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 557722010726 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722010727 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722010728 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557722010729 type III secretion system chaperone, YscB family; Region: type_III_yscB; TIGR02513 557722010730 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 557722010731 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722010732 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722010733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722010734 type III secretion system chaperone YscW; Region: YscW; TIGR02567 557722010735 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 557722010736 YopD protein; Region: YopD; pfam05844 557722010737 Uncharacterized conserved protein [Function unknown]; Region: COG5613 557722010738 V antigen (LcrV) protein; Region: LcrV; pfam04792 557722010739 LcrG protein; Region: LcrG; cl06311 557722010740 type III secretion system regulator LcrR; Region: LcrR; TIGR02572 557722010741 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 557722010742 FHIPEP family; Region: FHIPEP; pfam00771 557722010743 type III secretion protein, YscX family; Region: type_III_YscX; TIGR02502 557722010744 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 557722010745 TyeA; Region: TyeA; pfam09059 557722010746 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 557722010747 type III secretion system ATPase; Provisional; Region: PRK06936 557722010748 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557722010749 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 557722010750 Walker A motif/ATP binding site; other site 557722010751 Walker B motif; other site 557722010752 Type III secretion protein YscO; Region: YscO; pfam07321 557722010753 type III secretion system protein; Validated; Region: PRK06933 557722010754 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 557722010755 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 557722010756 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 557722010757 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 557722010758 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 557722010759 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 557722010760 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 557722010761 Sulfatase; Region: Sulfatase; pfam00884 557722010762 Uncharacterized conserved protein [Function unknown]; Region: COG3391 557722010763 Strictosidine synthase; Region: Str_synth; pfam03088 557722010764 spermidine synthase; Provisional; Region: PRK00811 557722010765 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722010766 S-adenosylmethionine binding site [chemical binding]; other site 557722010767 AlkA N-terminal domain; Region: AlkA_N; pfam06029 557722010768 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 557722010769 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557722010770 minor groove reading motif; other site 557722010771 helix-hairpin-helix signature motif; other site 557722010772 substrate binding pocket [chemical binding]; other site 557722010773 active site 557722010774 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 557722010775 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557722010776 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 557722010777 Cupin domain; Region: Cupin_2; cl17218 557722010778 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 557722010779 intersubunit interface [polypeptide binding]; other site 557722010780 active site 557722010781 Zn2+ binding site [ion binding]; other site 557722010782 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722010783 putative substrate translocation pore; other site 557722010784 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 557722010785 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 557722010786 Tetramer interface [polypeptide binding]; other site 557722010787 active site 557722010788 FMN-binding site [chemical binding]; other site 557722010789 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 557722010790 HemK family putative methylases; Region: hemK_fam; TIGR00536 557722010791 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722010792 S-adenosylmethionine binding site [chemical binding]; other site 557722010793 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 557722010794 Isochorismatase family; Region: Isochorismatase; pfam00857 557722010795 catalytic triad [active] 557722010796 conserved cis-peptide bond; other site 557722010797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 557722010798 Smr domain; Region: Smr; pfam01713 557722010799 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 557722010800 homodecamer interface [polypeptide binding]; other site 557722010801 GTP cyclohydrolase I; Provisional; Region: PLN03044 557722010802 active site 557722010803 putative catalytic site residues [active] 557722010804 zinc binding site [ion binding]; other site 557722010805 GTP-CH-I/GFRP interaction surface; other site 557722010806 Hemerythrin; Region: Hemerythrin; cd12107 557722010807 Fe binding site [ion binding]; other site 557722010808 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 557722010809 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722010810 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 557722010811 Catalytic domain of Protein Kinases; Region: PKc; cd00180 557722010812 active site 557722010813 ATP binding site [chemical binding]; other site 557722010814 substrate binding site [chemical binding]; other site 557722010815 activation loop (A-loop); other site 557722010816 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557722010817 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 557722010818 Protein phosphatase 2C; Region: PP2C; pfam00481 557722010819 active site 557722010820 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 557722010821 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 557722010822 G1 box; other site 557722010823 GTP/Mg2+ binding site [chemical binding]; other site 557722010824 G2 box; other site 557722010825 Switch I region; other site 557722010826 G3 box; other site 557722010827 Switch II region; other site 557722010828 G4 box; other site 557722010829 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 557722010830 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 557722010831 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 557722010832 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 557722010833 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 557722010834 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 557722010835 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 557722010836 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 557722010837 phosphopeptide binding site; other site 557722010838 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 557722010839 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 557722010840 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722010841 Walker A motif; other site 557722010842 ATP binding site [chemical binding]; other site 557722010843 Walker B motif; other site 557722010844 arginine finger; other site 557722010845 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722010846 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 557722010847 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722010848 Walker A motif; other site 557722010849 ATP binding site [chemical binding]; other site 557722010850 Walker B motif; other site 557722010851 arginine finger; other site 557722010852 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722010853 Walker A motif; other site 557722010854 ATP binding site [chemical binding]; other site 557722010855 Walker B motif; other site 557722010856 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557722010857 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 557722010858 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 557722010859 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 557722010860 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 557722010861 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 557722010862 Protein of unknown function (DUF877); Region: DUF877; pfam05943 557722010863 Protein of unknown function (DUF770); Region: DUF770; pfam05591 557722010864 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 557722010865 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 557722010866 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 557722010867 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722010868 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 557722010869 putative C-terminal domain interface [polypeptide binding]; other site 557722010870 putative GSH binding site (G-site) [chemical binding]; other site 557722010871 putative dimer interface [polypeptide binding]; other site 557722010872 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 557722010873 N-terminal domain interface [polypeptide binding]; other site 557722010874 dimer interface [polypeptide binding]; other site 557722010875 substrate binding pocket (H-site) [chemical binding]; other site 557722010876 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 557722010877 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 557722010878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722010879 homodimer interface [polypeptide binding]; other site 557722010880 catalytic residue [active] 557722010881 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557722010882 MarR family; Region: MarR_2; pfam12802 557722010883 benzoate transporter; Region: benE; TIGR00843 557722010884 Benzoate membrane transport protein; Region: BenE; pfam03594 557722010885 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 557722010886 Sodium Bile acid symporter family; Region: SBF; cl17470 557722010887 short chain dehydrogenase; Provisional; Region: PRK06172 557722010888 classical (c) SDRs; Region: SDR_c; cd05233 557722010889 NAD(P) binding site [chemical binding]; other site 557722010890 active site 557722010891 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 557722010892 Prostaglandin dehydrogenases; Region: PGDH; cd05288 557722010893 NAD(P) binding site [chemical binding]; other site 557722010894 substrate binding site [chemical binding]; other site 557722010895 dimer interface [polypeptide binding]; other site 557722010896 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 557722010897 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 557722010898 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557722010899 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 557722010900 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 557722010901 dimerization interface [polypeptide binding]; other site 557722010902 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722010903 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722010904 dimer interface [polypeptide binding]; other site 557722010905 putative CheW interface [polypeptide binding]; other site 557722010906 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 557722010907 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 557722010908 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 557722010909 active site residue [active] 557722010910 selenophosphate synthetase; Provisional; Region: PRK00943 557722010911 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 557722010912 dimerization interface [polypeptide binding]; other site 557722010913 putative ATP binding site [chemical binding]; other site 557722010914 hypothetical protein; Provisional; Region: PRK10279 557722010915 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 557722010916 active site 557722010917 nucleophile elbow; other site 557722010918 glutaminase; Provisional; Region: PRK00971 557722010919 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 557722010920 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 557722010921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722010922 active site 557722010923 phosphorylation site [posttranslational modification] 557722010924 intermolecular recognition site; other site 557722010925 dimerization interface [polypeptide binding]; other site 557722010926 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 557722010927 DNA binding site [nucleotide binding] 557722010928 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 557722010929 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 557722010930 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 557722010931 Ligand Binding Site [chemical binding]; other site 557722010932 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 557722010933 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 557722010934 dimer interface [polypeptide binding]; other site 557722010935 phosphorylation site [posttranslational modification] 557722010936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722010937 ATP binding site [chemical binding]; other site 557722010938 Mg2+ binding site [ion binding]; other site 557722010939 G-X-G motif; other site 557722010940 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 557722010941 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 557722010942 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722010943 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557722010944 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 557722010945 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722010946 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722010947 active site 557722010948 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 557722010949 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557722010950 Bacterial transcriptional regulator; Region: IclR; pfam01614 557722010951 enoyl-CoA hydratase; Provisional; Region: PRK08138 557722010952 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 557722010953 substrate binding site [chemical binding]; other site 557722010954 oxyanion hole (OAH) forming residues; other site 557722010955 trimer interface [polypeptide binding]; other site 557722010956 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557722010957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722010958 DNA-binding site [nucleotide binding]; DNA binding site 557722010959 FCD domain; Region: FCD; pfam07729 557722010960 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 557722010961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722010962 putative substrate translocation pore; other site 557722010963 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557722010964 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 557722010965 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 557722010966 C-terminal domain interface [polypeptide binding]; other site 557722010967 GSH binding site (G-site) [chemical binding]; other site 557722010968 dimer interface [polypeptide binding]; other site 557722010969 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 557722010970 N-terminal domain interface [polypeptide binding]; other site 557722010971 dimer interface [polypeptide binding]; other site 557722010972 substrate binding pocket (H-site) [chemical binding]; other site 557722010973 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722010974 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722010975 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 557722010976 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557722010977 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722010978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722010979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722010980 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 557722010981 CoenzymeA binding site [chemical binding]; other site 557722010982 subunit interaction site [polypeptide binding]; other site 557722010983 PHB binding site; other site 557722010984 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 557722010985 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 557722010986 acyl-activating enzyme (AAE) consensus motif; other site 557722010987 putative AMP binding site [chemical binding]; other site 557722010988 putative active site [active] 557722010989 putative CoA binding site [chemical binding]; other site 557722010990 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 557722010991 catalytic core [active] 557722010992 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 557722010993 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 557722010994 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557722010995 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 557722010996 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557722010997 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 557722010998 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 557722010999 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 557722011000 dimerization interface [polypeptide binding]; other site 557722011001 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 557722011002 dimer interface [polypeptide binding]; other site 557722011003 phosphorylation site [posttranslational modification] 557722011004 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722011005 ATP binding site [chemical binding]; other site 557722011006 Mg2+ binding site [ion binding]; other site 557722011007 G-X-G motif; other site 557722011008 Response regulator receiver domain; Region: Response_reg; pfam00072 557722011009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722011010 active site 557722011011 phosphorylation site [posttranslational modification] 557722011012 intermolecular recognition site; other site 557722011013 dimerization interface [polypeptide binding]; other site 557722011014 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 557722011015 active site 1 [active] 557722011016 dimer interface [polypeptide binding]; other site 557722011017 active site 2 [active] 557722011018 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 557722011019 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 557722011020 dimer interface [polypeptide binding]; other site 557722011021 active site 557722011022 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557722011023 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 557722011024 dimerization interface [polypeptide binding]; other site 557722011025 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722011026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722011027 dimer interface [polypeptide binding]; other site 557722011028 putative CheW interface [polypeptide binding]; other site 557722011029 Predicted transcriptional regulators [Transcription]; Region: COG1733 557722011030 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557722011031 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 557722011032 Amidohydrolase; Region: Amidohydro_2; pfam04909 557722011033 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 557722011034 membrane-bound complex binding site; other site 557722011035 hinge residues; other site 557722011036 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557722011037 MarR family; Region: MarR; pfam01047 557722011038 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557722011039 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 557722011040 catalytic loop [active] 557722011041 iron binding site [ion binding]; other site 557722011042 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557722011043 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557722011044 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722011045 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557722011046 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722011047 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722011048 cytochrome c-550; Provisional; Region: psbV; cl17239 557722011049 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722011050 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722011051 Cupin domain; Region: Cupin_2; cl17218 557722011052 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722011053 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722011054 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722011055 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 557722011056 oligomerization interface [polypeptide binding]; other site 557722011057 active site 557722011058 metal binding site [ion binding]; metal-binding site 557722011059 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 557722011060 heat shock protein 90; Provisional; Region: PRK05218 557722011061 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722011062 ATP binding site [chemical binding]; other site 557722011063 Mg2+ binding site [ion binding]; other site 557722011064 G-X-G motif; other site 557722011065 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 557722011066 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 557722011067 CoenzymeA binding site [chemical binding]; other site 557722011068 subunit interaction site [polypeptide binding]; other site 557722011069 PHB binding site; other site 557722011070 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 557722011071 CoenzymeA binding site [chemical binding]; other site 557722011072 subunit interaction site [polypeptide binding]; other site 557722011073 PHB binding site; other site 557722011074 Predicted membrane protein [Function unknown]; Region: COG3821 557722011075 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 557722011076 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 557722011077 CoA binding domain; Region: CoA_binding; pfam02629 557722011078 CoA-ligase; Region: Ligase_CoA; pfam00549 557722011079 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 557722011080 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 557722011081 CoA-ligase; Region: Ligase_CoA; pfam00549 557722011082 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 557722011083 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 557722011084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722011085 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557722011086 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 557722011087 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 557722011088 E3 interaction surface; other site 557722011089 lipoyl attachment site [posttranslational modification]; other site 557722011090 e3 binding domain; Region: E3_binding; pfam02817 557722011091 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557722011092 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 557722011093 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 557722011094 TPP-binding site [chemical binding]; other site 557722011095 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 557722011096 PYR/PP interface [polypeptide binding]; other site 557722011097 dimer interface [polypeptide binding]; other site 557722011098 TPP binding site [chemical binding]; other site 557722011099 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 557722011100 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 557722011101 L-aspartate oxidase; Provisional; Region: PRK06175 557722011102 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 557722011103 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557722011104 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 557722011105 SdhC subunit interface [polypeptide binding]; other site 557722011106 proximal heme binding site [chemical binding]; other site 557722011107 cardiolipin binding site; other site 557722011108 Iron-sulfur protein interface; other site 557722011109 proximal quinone binding site [chemical binding]; other site 557722011110 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 557722011111 Iron-sulfur protein interface; other site 557722011112 proximal quinone binding site [chemical binding]; other site 557722011113 SdhD (CybS) interface [polypeptide binding]; other site 557722011114 proximal heme binding site [chemical binding]; other site 557722011115 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 557722011116 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 557722011117 dimer interface [polypeptide binding]; other site 557722011118 active site 557722011119 citrylCoA binding site [chemical binding]; other site 557722011120 NADH binding [chemical binding]; other site 557722011121 cationic pore residues; other site 557722011122 oxalacetate/citrate binding site [chemical binding]; other site 557722011123 coenzyme A binding site [chemical binding]; other site 557722011124 catalytic triad [active] 557722011125 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 557722011126 putative lipid binding site [chemical binding]; other site 557722011127 Flagellin N-methylase; Region: FliB; pfam03692 557722011128 Protein of unknown function, DUF486; Region: DUF486; pfam04342 557722011129 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 557722011130 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557722011131 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 557722011132 active site 557722011133 catalytic site [active] 557722011134 substrate binding site [chemical binding]; other site 557722011135 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 557722011136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 557722011137 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 557722011138 ATP-NAD kinase; Region: NAD_kinase; pfam01513 557722011139 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 557722011140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722011141 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 557722011142 dimerization interface [polypeptide binding]; other site 557722011143 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 557722011144 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722011145 putative substrate translocation pore; other site 557722011146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722011147 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 557722011148 homotrimer interaction site [polypeptide binding]; other site 557722011149 putative active site [active] 557722011150 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722011151 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722011152 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557722011153 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722011154 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722011155 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722011156 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 557722011157 CPxP motif; other site 557722011158 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 557722011159 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 557722011160 aconitate hydratase; Validated; Region: PRK09277 557722011161 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 557722011162 substrate binding site [chemical binding]; other site 557722011163 ligand binding site [chemical binding]; other site 557722011164 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 557722011165 substrate binding site [chemical binding]; other site 557722011166 PAS domain; Region: PAS_9; pfam13426 557722011167 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 557722011168 putative active site [active] 557722011169 heme pocket [chemical binding]; other site 557722011170 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722011171 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722011172 dimer interface [polypeptide binding]; other site 557722011173 putative CheW interface [polypeptide binding]; other site 557722011174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722011175 NAD(P) binding site [chemical binding]; other site 557722011176 active site 557722011177 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 557722011178 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 557722011179 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 557722011180 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557722011181 Low-spin heme binding site [chemical binding]; other site 557722011182 Putative water exit pathway; other site 557722011183 Binuclear center (active site) [active] 557722011184 Putative proton exit pathway; other site 557722011185 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 557722011186 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 557722011187 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 557722011188 Cytochrome c; Region: Cytochrom_C; pfam00034 557722011189 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722011190 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 557722011191 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 557722011192 Low-spin heme binding site [chemical binding]; other site 557722011193 Putative water exit pathway; other site 557722011194 Binuclear center (active site) [active] 557722011195 Putative proton exit pathway; other site 557722011196 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 557722011197 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 557722011198 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 557722011199 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 557722011200 Cytochrome c; Region: Cytochrom_C; cl11414 557722011201 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 557722011202 4Fe-4S binding domain; Region: Fer4_5; pfam12801 557722011203 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 557722011204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 557722011205 FixH; Region: FixH; pfam05751 557722011206 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 557722011207 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557722011208 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 557722011209 metal-binding site [ion binding] 557722011210 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722011211 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557722011212 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 557722011213 Uncharacterized conserved protein [Function unknown]; Region: COG2836 557722011214 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 557722011215 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 557722011216 FeS/SAM binding site; other site 557722011217 HemN C-terminal domain; Region: HemN_C; pfam06969 557722011218 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 557722011219 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 557722011220 ligand binding site [chemical binding]; other site 557722011221 flexible hinge region; other site 557722011222 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 557722011223 putative switch regulator; other site 557722011224 non-specific DNA interactions [nucleotide binding]; other site 557722011225 DNA binding site [nucleotide binding] 557722011226 sequence specific DNA binding site [nucleotide binding]; other site 557722011227 putative cAMP binding site [chemical binding]; other site 557722011228 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722011229 active site 557722011230 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557722011231 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557722011232 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 557722011233 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 557722011234 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 557722011235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722011236 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557722011237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 557722011238 short chain dehydrogenase; Provisional; Region: PRK06181 557722011239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722011240 NAD(P) binding site [chemical binding]; other site 557722011241 active site 557722011242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3196 557722011243 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722011244 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722011245 active site 557722011246 recombination protein RecR; Reviewed; Region: recR; PRK00076 557722011247 RecR protein; Region: RecR; pfam02132 557722011248 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 557722011249 putative active site [active] 557722011250 putative metal-binding site [ion binding]; other site 557722011251 tetramer interface [polypeptide binding]; other site 557722011252 hypothetical protein; Validated; Region: PRK00153 557722011253 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 557722011254 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722011255 Walker A motif; other site 557722011256 ATP binding site [chemical binding]; other site 557722011257 Walker B motif; other site 557722011258 arginine finger; other site 557722011259 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 557722011260 potential protein location (hypothetical protein PLES_37971 [Pseudomonas aeruginosa LESB58]) that overlaps RNA (4.5S ribosomal RNA) 557722011261 potential protein location (hypothetical protein PLES_37981 [Pseudomonas aeruginosa LESB58]) that overlaps RNA (4.5S ribosomal RNA) 557722011262 Ligase N family; Region: LIGANc; smart00532 557722011263 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 557722011264 nucleotide binding pocket [chemical binding]; other site 557722011265 K-X-D-G motif; other site 557722011266 catalytic site [active] 557722011267 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 557722011268 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 557722011269 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 557722011270 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 557722011271 Dimer interface [polypeptide binding]; other site 557722011272 BRCT sequence motif; other site 557722011273 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 557722011274 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 557722011275 FtsZ protein binding site [polypeptide binding]; other site 557722011276 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557722011277 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557722011278 Walker A/P-loop; other site 557722011279 ATP binding site [chemical binding]; other site 557722011280 Q-loop/lid; other site 557722011281 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 557722011282 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557722011283 ABC transporter signature motif; other site 557722011284 Walker B; other site 557722011285 D-loop; other site 557722011286 H-loop/switch region; other site 557722011287 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557722011288 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722011289 DNA-binding site [nucleotide binding]; DNA binding site 557722011290 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557722011291 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 557722011292 Fatty acid desaturase; Region: FA_desaturase; pfam00487 557722011293 Di-iron ligands [ion binding]; other site 557722011294 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 557722011295 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 557722011296 catalytic loop [active] 557722011297 iron binding site [ion binding]; other site 557722011298 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557722011299 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 557722011300 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 557722011301 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 557722011302 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722011303 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 557722011304 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 557722011305 XdhC Rossmann domain; Region: XdhC_C; pfam13478 557722011306 guanine deaminase; Provisional; Region: PRK09228 557722011307 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 557722011308 active site 557722011309 putative acetyltransferase YhhY; Provisional; Region: PRK10140 557722011310 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722011311 Coenzyme A binding pocket [chemical binding]; other site 557722011312 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 557722011313 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 557722011314 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 557722011315 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 557722011316 ligand binding site [chemical binding]; other site 557722011317 NAD binding site [chemical binding]; other site 557722011318 catalytic site [active] 557722011319 homodimer interface [polypeptide binding]; other site 557722011320 Predicted transcriptional regulators [Transcription]; Region: COG1733 557722011321 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557722011322 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 557722011323 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 557722011324 dimer interface [polypeptide binding]; other site 557722011325 active site 557722011326 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 557722011327 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 557722011328 Fic/DOC family; Region: Fic; pfam02661 557722011329 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722011330 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557722011331 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 557722011332 N-terminal plug; other site 557722011333 ligand-binding site [chemical binding]; other site 557722011334 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722011335 FecR protein; Region: FecR; pfam04773 557722011336 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 557722011337 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 557722011338 DNA binding residues [nucleotide binding] 557722011339 multidrug efflux protein; Reviewed; Region: PRK01766 557722011340 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 557722011341 cation binding site [ion binding]; other site 557722011342 threonine and homoserine efflux system; Provisional; Region: PRK10532 557722011343 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 557722011344 non-specific DNA binding site [nucleotide binding]; other site 557722011345 salt bridge; other site 557722011346 sequence-specific DNA binding site [nucleotide binding]; other site 557722011347 Cupin domain; Region: Cupin_2; pfam07883 557722011348 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 557722011349 dimer interface [polypeptide binding]; other site 557722011350 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 557722011351 putative deacylase active site [active] 557722011352 Ubiquitin-like proteins; Region: UBQ; cl00155 557722011353 charged pocket; other site 557722011354 hydrophobic patch; other site 557722011355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 557722011356 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722011357 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 557722011358 dimer interface [polypeptide binding]; other site 557722011359 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 557722011360 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722011361 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 557722011362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 557722011363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 557722011364 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722011365 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 557722011366 DNA binding residues [nucleotide binding] 557722011367 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 557722011368 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 557722011369 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 557722011370 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 557722011371 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 557722011372 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722011373 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722011374 short chain dehydrogenase; Provisional; Region: PRK06523 557722011375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722011376 NAD(P) binding site [chemical binding]; other site 557722011377 active site 557722011378 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 557722011379 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 557722011380 substrate binding pocket [chemical binding]; other site 557722011381 membrane-bound complex binding site; other site 557722011382 hinge residues; other site 557722011383 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722011384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722011385 dimer interface [polypeptide binding]; other site 557722011386 conserved gate region; other site 557722011387 putative PBP binding loops; other site 557722011388 ABC-ATPase subunit interface; other site 557722011389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722011390 dimer interface [polypeptide binding]; other site 557722011391 conserved gate region; other site 557722011392 putative PBP binding loops; other site 557722011393 ABC-ATPase subunit interface; other site 557722011394 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557722011395 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557722011396 Walker A/P-loop; other site 557722011397 ATP binding site [chemical binding]; other site 557722011398 Q-loop/lid; other site 557722011399 ABC transporter signature motif; other site 557722011400 Walker B; other site 557722011401 D-loop; other site 557722011402 H-loop/switch region; other site 557722011403 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 557722011404 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 557722011405 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 557722011406 homodimer interface [polypeptide binding]; other site 557722011407 active site 557722011408 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 557722011409 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 557722011410 dimer interface [polypeptide binding]; other site 557722011411 phosphorylation site [posttranslational modification] 557722011412 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722011413 ATP binding site [chemical binding]; other site 557722011414 Mg2+ binding site [ion binding]; other site 557722011415 G-X-G motif; other site 557722011416 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722011417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722011418 active site 557722011419 phosphorylation site [posttranslational modification] 557722011420 intermolecular recognition site; other site 557722011421 dimerization interface [polypeptide binding]; other site 557722011422 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722011423 Walker A motif; other site 557722011424 ATP binding site [chemical binding]; other site 557722011425 Walker B motif; other site 557722011426 arginine finger; other site 557722011427 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722011428 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 557722011429 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722011430 FMN binding site [chemical binding]; other site 557722011431 active site 557722011432 substrate binding site [chemical binding]; other site 557722011433 catalytic residue [active] 557722011434 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 557722011435 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557722011436 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 557722011437 Transporter associated domain; Region: CorC_HlyC; smart01091 557722011438 short chain dehydrogenase; Provisional; Region: PRK09291 557722011439 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 557722011440 NADP binding site [chemical binding]; other site 557722011441 active site 557722011442 steroid binding site; other site 557722011443 Domain of unknown function (DUF336); Region: DUF336; cl01249 557722011444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722011445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722011446 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 557722011447 putative effector binding pocket; other site 557722011448 putative dimerization interface [polypeptide binding]; other site 557722011449 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557722011450 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 557722011451 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 557722011452 active site 557722011453 substrate binding site [chemical binding]; other site 557722011454 Mg2+ binding site [ion binding]; other site 557722011455 threonine dehydratase; Reviewed; Region: PRK09224 557722011456 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 557722011457 tetramer interface [polypeptide binding]; other site 557722011458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722011459 catalytic residue [active] 557722011460 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 557722011461 putative Ile/Val binding site [chemical binding]; other site 557722011462 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 557722011463 putative Ile/Val binding site [chemical binding]; other site 557722011464 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 557722011465 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 557722011466 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 557722011467 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 557722011468 N-terminal plug; other site 557722011469 ligand-binding site [chemical binding]; other site 557722011470 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 557722011471 UbiA prenyltransferase family; Region: UbiA; pfam01040 557722011472 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 557722011473 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 557722011474 Subunit I/III interface [polypeptide binding]; other site 557722011475 Subunit III/IV interface [polypeptide binding]; other site 557722011476 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 557722011477 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 557722011478 D-pathway; other site 557722011479 Putative ubiquinol binding site [chemical binding]; other site 557722011480 Low-spin heme (heme b) binding site [chemical binding]; other site 557722011481 Putative water exit pathway; other site 557722011482 Binuclear center (heme o3/CuB) [ion binding]; other site 557722011483 K-pathway; other site 557722011484 Putative proton exit pathway; other site 557722011485 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 557722011486 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 557722011487 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 557722011488 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557722011489 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722011490 putative substrate translocation pore; other site 557722011491 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722011492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722011493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 557722011494 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722011495 putative substrate translocation pore; other site 557722011496 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722011497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722011498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722011499 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 557722011500 putative effector binding pocket; other site 557722011501 dimerization interface [polypeptide binding]; other site 557722011502 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 557722011503 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 557722011504 motif II; other site 557722011505 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 557722011506 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722011507 catalytic residue [active] 557722011508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722011509 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 557722011510 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 557722011511 dimerization interface [polypeptide binding]; other site 557722011512 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 557722011513 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 557722011514 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 557722011515 putative active site [active] 557722011516 putative dimer interface [polypeptide binding]; other site 557722011517 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 557722011518 nucleotide binding site/active site [active] 557722011519 HIT family signature motif; other site 557722011520 catalytic residue [active] 557722011521 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 557722011522 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722011523 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 557722011524 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 557722011525 Catalytic site [active] 557722011526 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722011527 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 557722011528 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 557722011529 N-terminal plug; other site 557722011530 ligand-binding site [chemical binding]; other site 557722011531 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722011532 FecR protein; Region: FecR; pfam04773 557722011533 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 557722011534 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722011535 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 557722011536 DNA binding residues [nucleotide binding] 557722011537 hypothetical protein; Provisional; Region: PRK05170 557722011538 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 557722011539 putative metal binding site [ion binding]; other site 557722011540 putative homodimer interface [polypeptide binding]; other site 557722011541 putative homotetramer interface [polypeptide binding]; other site 557722011542 putative homodimer-homodimer interface [polypeptide binding]; other site 557722011543 putative allosteric switch controlling residues; other site 557722011544 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557722011545 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 557722011546 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 557722011547 NAD binding site [chemical binding]; other site 557722011548 ligand binding site [chemical binding]; other site 557722011549 catalytic site [active] 557722011550 YcgL domain; Region: YcgL; pfam05166 557722011551 ribonuclease D; Region: rnd; TIGR01388 557722011552 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 557722011553 catalytic site [active] 557722011554 putative active site [active] 557722011555 putative substrate binding site [chemical binding]; other site 557722011556 HRDC domain; Region: HRDC; pfam00570 557722011557 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 557722011558 Strictosidine synthase; Region: Str_synth; pfam03088 557722011559 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557722011560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722011561 DNA-binding site [nucleotide binding]; DNA binding site 557722011562 FCD domain; Region: FCD; pfam07729 557722011563 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 557722011564 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557722011565 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 557722011566 active site 557722011567 homotetramer interface [polypeptide binding]; other site 557722011568 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 557722011569 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 557722011570 active site 557722011571 catalytic site [active] 557722011572 tetramer interface [polypeptide binding]; other site 557722011573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 557722011574 Allantoicase [Nucleotide transport and metabolism]; Region: Alc; COG4266 557722011575 Allantoicase repeat; Region: Allantoicase; pfam03561 557722011576 Allantoicase repeat; Region: Allantoicase; pfam03561 557722011577 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 557722011578 ureidoglycolate hydrolase; Provisional; Region: PRK03606 557722011579 Predicted membrane protein [Function unknown]; Region: COG3748 557722011580 Protein of unknown function (DUF989); Region: DUF989; pfam06181 557722011581 Cytochrome c; Region: Cytochrom_C; pfam00034 557722011582 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 557722011583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 557722011584 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722011585 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722011586 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 557722011587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 557722011588 PGAP1-like protein; Region: PGAP1; pfam07819 557722011589 PAAR motif; Region: PAAR_motif; pfam05488 557722011590 xanthine permease; Region: pbuX; TIGR03173 557722011591 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 557722011592 active site 557722011593 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 557722011594 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 557722011595 FeS/SAM binding site; other site 557722011596 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 557722011597 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 557722011598 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722011599 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 557722011600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722011601 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 557722011602 glyoxylate carboligase; Provisional; Region: PRK11269 557722011603 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557722011604 PYR/PP interface [polypeptide binding]; other site 557722011605 dimer interface [polypeptide binding]; other site 557722011606 TPP binding site [chemical binding]; other site 557722011607 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722011608 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 557722011609 TPP-binding site [chemical binding]; other site 557722011610 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 557722011611 tartronate semialdehyde reductase; Provisional; Region: PRK15059 557722011612 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557722011613 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 557722011614 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 557722011615 MOFRL family; Region: MOFRL; pfam05161 557722011616 pyruvate kinase; Provisional; Region: PRK06247 557722011617 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 557722011618 domain interfaces; other site 557722011619 active site 557722011620 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 557722011621 Ion transport protein; Region: Ion_trans; pfam00520 557722011622 Ion channel; Region: Ion_trans_2; pfam07885 557722011623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 557722011624 conserved hypothetical protein; Region: TIGR02231 557722011625 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 557722011626 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 557722011627 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 557722011628 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 557722011629 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557722011630 Domain of unknown function (DUF1937); Region: DUF1937; pfam09152 557722011631 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 557722011632 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557722011633 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 557722011634 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557722011635 Predicted dehydrogenase [General function prediction only]; Region: COG0579 557722011636 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557722011637 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 557722011638 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 557722011639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722011640 Proteobacterial glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK_like_proteobact; cd07794 557722011641 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 557722011642 N- and C-terminal domain interface [polypeptide binding]; other site 557722011643 active site 557722011644 MgATP binding site [chemical binding]; other site 557722011645 catalytic site [active] 557722011646 metal binding site [ion binding]; metal-binding site 557722011647 putative homotetramer interface [polypeptide binding]; other site 557722011648 putative homodimer interface [polypeptide binding]; other site 557722011649 putative glycerol binding site [chemical binding]; other site 557722011650 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 557722011651 homodimer interface [polypeptide binding]; other site 557722011652 homotetramer interface [polypeptide binding]; other site 557722011653 active site pocket [active] 557722011654 cleavage site 557722011655 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557722011656 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722011657 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 557722011658 DNA binding residues [nucleotide binding] 557722011659 dimerization interface [polypeptide binding]; other site 557722011660 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 557722011661 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 557722011662 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 557722011663 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 557722011664 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 557722011665 catalytic residues [active] 557722011666 central insert; other site 557722011667 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 557722011668 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 557722011669 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 557722011670 heme exporter protein CcmC; Region: ccmC; TIGR01191 557722011671 heme exporter protein CcmB; Region: ccmB; TIGR01190 557722011672 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 557722011673 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 557722011674 Walker A/P-loop; other site 557722011675 ATP binding site [chemical binding]; other site 557722011676 Q-loop/lid; other site 557722011677 ABC transporter signature motif; other site 557722011678 Walker B; other site 557722011679 D-loop; other site 557722011680 H-loop/switch region; other site 557722011681 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 557722011682 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 557722011683 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557722011684 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722011685 short chain dehydrogenase; Provisional; Region: PRK12937 557722011686 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 557722011687 NADP binding site [chemical binding]; other site 557722011688 homodimer interface [polypeptide binding]; other site 557722011689 active site 557722011690 substrate binding site [chemical binding]; other site 557722011691 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 557722011692 Predicted transcriptional regulator [Transcription]; Region: COG2378 557722011693 HTH domain; Region: HTH_11; pfam08279 557722011694 WYL domain; Region: WYL; pfam13280 557722011695 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 557722011696 C-terminal domain interface [polypeptide binding]; other site 557722011697 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722011698 GSH binding site (G-site) [chemical binding]; other site 557722011699 dimer interface [polypeptide binding]; other site 557722011700 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 557722011701 N-terminal domain interface [polypeptide binding]; other site 557722011702 dimer interface [polypeptide binding]; other site 557722011703 substrate binding pocket (H-site) [chemical binding]; other site 557722011704 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 557722011705 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 557722011706 putative CheA interaction surface; other site 557722011707 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 557722011708 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557722011709 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 557722011710 P-loop; other site 557722011711 Magnesium ion binding site [ion binding]; other site 557722011712 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 557722011713 Magnesium ion binding site [ion binding]; other site 557722011714 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 557722011715 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 557722011716 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722011717 ligand binding site [chemical binding]; other site 557722011718 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 557722011719 flagellar motor protein; Reviewed; Region: motC; PRK09109 557722011720 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 557722011721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722011722 active site 557722011723 phosphorylation site [posttranslational modification] 557722011724 intermolecular recognition site; other site 557722011725 dimerization interface [polypeptide binding]; other site 557722011726 CheB methylesterase; Region: CheB_methylest; pfam01339 557722011727 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 557722011728 putative binding surface; other site 557722011729 active site 557722011730 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 557722011731 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 557722011732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722011733 ATP binding site [chemical binding]; other site 557722011734 Mg2+ binding site [ion binding]; other site 557722011735 G-X-G motif; other site 557722011736 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 557722011737 Chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheZ; COG3143 557722011738 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 557722011739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722011740 active site 557722011741 phosphorylation site [posttranslational modification] 557722011742 intermolecular recognition site; other site 557722011743 dimerization interface [polypeptide binding]; other site 557722011744 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 557722011745 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722011746 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557722011747 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 557722011748 DNA binding residues [nucleotide binding] 557722011749 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 557722011750 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 557722011751 P-loop; other site 557722011752 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 557722011753 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 557722011754 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 557722011755 FHIPEP family; Region: FHIPEP; pfam00771 557722011756 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 557722011757 Repair protein; Region: Repair_PSII; pfam04536 557722011758 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 557722011759 Repair protein; Region: Repair_PSII; pfam04536 557722011760 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 557722011761 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 557722011762 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 557722011763 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 557722011764 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 557722011765 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 557722011766 flagellar motor switch protein; Validated; Region: fliN; PRK05698 557722011767 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 557722011768 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 557722011769 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 557722011770 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 557722011771 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 557722011772 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 557722011773 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 557722011774 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 557722011775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 557722011776 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557722011777 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 557722011778 dimer interface [polypeptide binding]; other site 557722011779 phosphorylation site [posttranslational modification] 557722011780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722011781 ATP binding site [chemical binding]; other site 557722011782 Mg2+ binding site [ion binding]; other site 557722011783 G-X-G motif; other site 557722011784 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 557722011785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722011786 active site 557722011787 phosphorylation site [posttranslational modification] 557722011788 intermolecular recognition site; other site 557722011789 dimerization interface [polypeptide binding]; other site 557722011790 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 557722011791 DNA binding site [nucleotide binding] 557722011792 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 557722011793 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722011794 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722011795 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722011796 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 557722011797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722011798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722011799 metal binding site [ion binding]; metal-binding site 557722011800 active site 557722011801 I-site; other site 557722011802 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 557722011803 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 557722011804 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 557722011805 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557722011806 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 557722011807 DNA binding residues [nucleotide binding] 557722011808 dimerization interface [polypeptide binding]; other site 557722011809 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 557722011810 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 557722011811 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722011812 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 557722011813 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557722011814 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 557722011815 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557722011816 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557722011817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722011818 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722011819 Walker A/P-loop; other site 557722011820 Walker A/P-loop; other site 557722011821 ATP binding site [chemical binding]; other site 557722011822 ATP binding site [chemical binding]; other site 557722011823 Q-loop/lid; other site 557722011824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722011825 Q-loop/lid; other site 557722011826 ABC transporter signature motif; other site 557722011827 ABC transporter signature motif; other site 557722011828 Walker B; other site 557722011829 Walker B; other site 557722011830 D-loop; other site 557722011831 H-loop/switch region; other site 557722011832 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722011833 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 557722011834 Uncharacterized conserved protein [Function unknown]; Region: COG3148 557722011835 PAS domain; Region: PAS_9; pfam13426 557722011836 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 557722011837 putative active site [active] 557722011838 heme pocket [chemical binding]; other site 557722011839 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 557722011840 PAS domain; Region: PAS_9; pfam13426 557722011841 putative active site [active] 557722011842 heme pocket [chemical binding]; other site 557722011843 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722011844 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722011845 dimer interface [polypeptide binding]; other site 557722011846 putative CheW interface [polypeptide binding]; other site 557722011847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722011848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722011849 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 557722011850 dimerization interface [polypeptide binding]; other site 557722011851 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 557722011852 agmatinase; Region: agmatinase; TIGR01230 557722011853 oligomer interface [polypeptide binding]; other site 557722011854 putative active site [active] 557722011855 Mn binding site [ion binding]; other site 557722011856 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 557722011857 SnoaL-like domain; Region: SnoaL_3; pfam13474 557722011858 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 557722011859 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557722011860 Na binding site [ion binding]; other site 557722011861 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 557722011862 Na binding site [ion binding]; other site 557722011863 hypothetical protein; Provisional; Region: PRK07524 557722011864 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557722011865 PYR/PP interface [polypeptide binding]; other site 557722011866 dimer interface [polypeptide binding]; other site 557722011867 TPP binding site [chemical binding]; other site 557722011868 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722011869 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 557722011870 TPP-binding site [chemical binding]; other site 557722011871 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557722011872 FAD binding domain; Region: FAD_binding_4; pfam01565 557722011873 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557722011874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722011875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722011876 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 557722011877 putative dimerization interface [polypeptide binding]; other site 557722011878 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 557722011879 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557722011880 EamA-like transporter family; Region: EamA; pfam00892 557722011881 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 557722011882 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557722011883 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 557722011884 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 557722011885 active site 557722011886 Zn binding site [ion binding]; other site 557722011887 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 557722011888 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 557722011889 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722011890 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 557722011891 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722011892 S-adenosylmethionine binding site [chemical binding]; other site 557722011893 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 557722011894 active site 557722011895 NTP binding site [chemical binding]; other site 557722011896 metal binding triad [ion binding]; metal-binding site 557722011897 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557722011898 Family description; Region: UvrD_C_2; pfam13538 557722011899 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722011900 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722011901 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 557722011902 Methyltransferase domain; Region: Methyltransf_24; pfam13578 557722011903 Predicted ester cyclase [General function prediction only]; Region: COG5485 557722011904 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 557722011905 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722011906 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722011907 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557722011908 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 557722011909 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 557722011910 carboxyltransferase (CT) interaction site; other site 557722011911 biotinylation site [posttranslational modification]; other site 557722011912 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 557722011913 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 557722011914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722011915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722011916 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 557722011917 substrate binding pocket [chemical binding]; other site 557722011918 dimerization interface [polypeptide binding]; other site 557722011919 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722011920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722011921 active site 557722011922 phosphorylation site [posttranslational modification] 557722011923 intermolecular recognition site; other site 557722011924 dimerization interface [polypeptide binding]; other site 557722011925 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 557722011926 DNA binding residues [nucleotide binding] 557722011927 dimerization interface [polypeptide binding]; other site 557722011928 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722011929 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 557722011930 dimer interface [polypeptide binding]; other site 557722011931 phosphorylation site [posttranslational modification] 557722011932 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 557722011933 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722011934 ATP binding site [chemical binding]; other site 557722011935 Mg2+ binding site [ion binding]; other site 557722011936 G-X-G motif; other site 557722011937 Response regulator receiver domain; Region: Response_reg; pfam00072 557722011938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722011939 active site 557722011940 phosphorylation site [posttranslational modification] 557722011941 intermolecular recognition site; other site 557722011942 dimerization interface [polypeptide binding]; other site 557722011943 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 557722011944 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 557722011945 active site residue [active] 557722011946 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 557722011947 active site residue [active] 557722011948 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 557722011949 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722011950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722011951 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 557722011952 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 557722011953 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557722011954 catalytic residues [active] 557722011955 dimer interface [polypeptide binding]; other site 557722011956 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722011957 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722011958 Transcriptional regulators [Transcription]; Region: MarR; COG1846 557722011959 MarR family; Region: MarR_2; pfam12802 557722011960 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557722011961 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557722011962 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722011963 active site 557722011964 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557722011965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722011966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722011967 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 557722011968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722011969 cobalamin synthase; Reviewed; Region: cobS; PRK00235 557722011970 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 557722011971 catalytic core [active] 557722011972 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 557722011973 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 557722011974 putative dimer interface [polypeptide binding]; other site 557722011975 active site pocket [active] 557722011976 putative cataytic base [active] 557722011977 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 557722011978 homotrimer interface [polypeptide binding]; other site 557722011979 Walker A motif; other site 557722011980 GTP binding site [chemical binding]; other site 557722011981 Walker B motif; other site 557722011982 cobyric acid synthase; Provisional; Region: PRK00784 557722011983 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 557722011984 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557722011985 catalytic triad [active] 557722011986 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 557722011987 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 557722011988 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722011989 catalytic residue [active] 557722011990 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 557722011991 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 557722011992 FMN binding site [chemical binding]; other site 557722011993 dimer interface [polypeptide binding]; other site 557722011994 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 557722011995 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 557722011996 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 557722011997 conserved cys residue [active] 557722011998 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 557722011999 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 557722012000 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 557722012001 homodimer interface [polypeptide binding]; other site 557722012002 Walker A motif; other site 557722012003 ATP binding site [chemical binding]; other site 557722012004 hydroxycobalamin binding site [chemical binding]; other site 557722012005 Walker B motif; other site 557722012006 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 557722012007 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 557722012008 N-terminal plug; other site 557722012009 ligand-binding site [chemical binding]; other site 557722012010 Fusaric acid resistance protein family; Region: FUSC; pfam04632 557722012011 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 557722012012 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557722012013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722012014 DNA-binding site [nucleotide binding]; DNA binding site 557722012015 FCD domain; Region: FCD; pfam07729 557722012016 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 557722012017 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 557722012018 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722012019 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557722012020 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 557722012021 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 557722012022 EamA-like transporter family; Region: EamA; pfam00892 557722012023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012025 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 557722012026 Helix-turn-helix domain; Region: HTH_31; pfam13560 557722012027 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012028 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557722012029 putative substrate translocation pore; other site 557722012030 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 557722012031 PAS domain; Region: PAS_9; pfam13426 557722012032 putative active site [active] 557722012033 heme pocket [chemical binding]; other site 557722012034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722012035 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722012036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722012037 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722012038 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 557722012039 substrate binding pocket [chemical binding]; other site 557722012040 membrane-bound complex binding site; other site 557722012041 hinge residues; other site 557722012042 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 557722012043 substrate binding site [chemical binding]; other site 557722012044 Protein of unknown function (DUF521); Region: DUF521; pfam04412 557722012045 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 557722012046 substrate binding site [chemical binding]; other site 557722012047 ligand binding site [chemical binding]; other site 557722012048 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722012049 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722012050 dimer interface [polypeptide binding]; other site 557722012051 conserved gate region; other site 557722012052 putative PBP binding loops; other site 557722012053 ABC-ATPase subunit interface; other site 557722012054 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722012055 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722012056 dimer interface [polypeptide binding]; other site 557722012057 conserved gate region; other site 557722012058 putative PBP binding loops; other site 557722012059 ABC-ATPase subunit interface; other site 557722012060 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557722012061 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557722012062 Walker A/P-loop; other site 557722012063 ATP binding site [chemical binding]; other site 557722012064 Q-loop/lid; other site 557722012065 ABC transporter signature motif; other site 557722012066 Walker B; other site 557722012067 D-loop; other site 557722012068 H-loop/switch region; other site 557722012069 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 557722012070 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 557722012071 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557722012072 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557722012073 inhibitor site; inhibition site 557722012074 active site 557722012075 dimer interface [polypeptide binding]; other site 557722012076 catalytic residue [active] 557722012077 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557722012078 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 557722012079 dimer interface [polypeptide binding]; other site 557722012080 NADP binding site [chemical binding]; other site 557722012081 catalytic residues [active] 557722012082 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 557722012083 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557722012084 HAMP domain; Region: HAMP; pfam00672 557722012085 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722012086 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722012087 dimer interface [polypeptide binding]; other site 557722012088 putative CheW interface [polypeptide binding]; other site 557722012089 Protease inhibitor Inh; Region: Inh; pfam02974 557722012090 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 557722012091 active site 557722012092 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 557722012093 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 557722012094 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557722012095 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722012096 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722012097 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 557722012098 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557722012099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722012100 Walker A/P-loop; other site 557722012101 ATP binding site [chemical binding]; other site 557722012102 Q-loop/lid; other site 557722012103 ABC transporter signature motif; other site 557722012104 Walker B; other site 557722012105 D-loop; other site 557722012106 H-loop/switch region; other site 557722012107 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 557722012108 GAF domain; Region: GAF; pfam01590 557722012109 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 557722012110 PAS domain; Region: PAS_9; pfam13426 557722012111 putative active site [active] 557722012112 heme pocket [chemical binding]; other site 557722012113 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722012114 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 557722012115 dimer interface [polypeptide binding]; other site 557722012116 phosphorylation site [posttranslational modification] 557722012117 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722012118 ATP binding site [chemical binding]; other site 557722012119 Mg2+ binding site [ion binding]; other site 557722012120 G-X-G motif; other site 557722012121 Response regulator receiver domain; Region: Response_reg; pfam00072 557722012122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722012123 active site 557722012124 phosphorylation site [posttranslational modification] 557722012125 intermolecular recognition site; other site 557722012126 dimerization interface [polypeptide binding]; other site 557722012127 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 557722012128 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 557722012129 active site 557722012130 catalytic residues [active] 557722012131 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557722012132 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557722012133 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722012134 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722012135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012136 putative substrate translocation pore; other site 557722012137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012138 Cupin domain; Region: Cupin_2; pfam07883 557722012139 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722012140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722012141 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722012142 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 557722012143 Fusaric acid resistance protein family; Region: FUSC; pfam04632 557722012144 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 557722012145 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722012146 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722012147 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722012148 Phosphotransferase enzyme family; Region: APH; pfam01636 557722012149 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722012150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722012151 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 557722012152 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722012153 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 557722012154 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722012155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012157 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 557722012158 putative substrate binding pocket [chemical binding]; other site 557722012159 putative dimerization interface [polypeptide binding]; other site 557722012160 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 557722012161 MltA specific insert domain; Region: MltA; pfam03562 557722012162 3D domain; Region: 3D; pfam06725 557722012163 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 557722012164 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 557722012165 acyl-activating enzyme (AAE) consensus motif; other site 557722012166 AMP binding site [chemical binding]; other site 557722012167 Thioesterase domain; Region: Thioesterase; pfam00975 557722012168 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 557722012169 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 557722012170 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 557722012171 active site 557722012172 catalytic residues [active] 557722012173 metal binding site [ion binding]; metal-binding site 557722012174 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722012175 S-adenosylmethionine binding site [chemical binding]; other site 557722012176 AMP-binding enzyme; Region: AMP-binding; pfam00501 557722012177 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 557722012178 acyl-activating enzyme (AAE) consensus motif; other site 557722012179 AMP binding site [chemical binding]; other site 557722012180 active site 557722012181 CoA binding site [chemical binding]; other site 557722012182 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 557722012183 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 557722012184 active site 557722012185 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 557722012186 Ligand Binding Site [chemical binding]; other site 557722012187 Molecular Tunnel; other site 557722012188 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 557722012189 substrate binding pocket [chemical binding]; other site 557722012190 active site 557722012191 iron coordination sites [ion binding]; other site 557722012192 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012193 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722012194 putative substrate translocation pore; other site 557722012195 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 557722012196 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722012197 Pirin-related protein [General function prediction only]; Region: COG1741 557722012198 Pirin; Region: Pirin; pfam02678 557722012199 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557722012200 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557722012201 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557722012202 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 557722012203 active site residue [active] 557722012204 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557722012205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 557722012206 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557722012207 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 557722012208 TrkA-N domain; Region: TrkA_N; pfam02254 557722012209 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 557722012210 putative hydrophobic ligand binding site [chemical binding]; other site 557722012211 Pirin-related protein [General function prediction only]; Region: COG1741 557722012212 Pirin; Region: Pirin; pfam02678 557722012213 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557722012214 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722012215 Predicted flavoprotein [General function prediction only]; Region: COG0431 557722012216 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 557722012217 Isochorismatase family; Region: Isochorismatase; pfam00857 557722012218 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 557722012219 catalytic triad [active] 557722012220 dimer interface [polypeptide binding]; other site 557722012221 conserved cis-peptide bond; other site 557722012222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012224 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 557722012225 putative effector binding pocket; other site 557722012226 dimerization interface [polypeptide binding]; other site 557722012227 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 557722012228 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722012229 S-adenosylmethionine binding site [chemical binding]; other site 557722012230 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557722012231 NlpC/P60 family; Region: NLPC_P60; pfam00877 557722012232 murein hydrolase B; Provisional; Region: PRK10760; cl17906 557722012233 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 557722012234 NlpC/P60 family; Region: NLPC_P60; pfam00877 557722012235 NAD-dependent deacetylase; Provisional; Region: PRK00481 557722012236 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 557722012237 NAD+ binding site [chemical binding]; other site 557722012238 substrate binding site [chemical binding]; other site 557722012239 Zn binding site [ion binding]; other site 557722012240 photoactive yellow protein; Region: photo_yellow; TIGR02373 557722012241 PAS domain; Region: PAS_9; pfam13426 557722012242 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 557722012243 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722012244 Walker A motif; other site 557722012245 ATP binding site [chemical binding]; other site 557722012246 Walker B motif; other site 557722012247 arginine finger; other site 557722012248 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 557722012249 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 557722012250 Amidinotransferase; Region: Amidinotransf; cl12043 557722012251 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557722012252 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 557722012253 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 557722012254 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 557722012255 Ligand Binding Site [chemical binding]; other site 557722012256 LES prophage 6 557722012257 integrase; Provisional; Region: int; PHA02601 557722012258 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 557722012259 active site 557722012260 DNA binding site [nucleotide binding] 557722012261 Int/Topo IB signature motif; other site 557722012262 Replication initiation factor; Region: Rep_trans; pfam02486 557722012263 putative assembly protein; Region: PHA00350 557722012264 Zonular occludens toxin (Zot); Region: Zot; cl17485 557722012265 hypothetical protein; Region: PHA01159 557722012266 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 557722012267 AAA domain; Region: AAA_21; pfam13304 557722012268 DNA-J related protein; Region: DNAJ_related; pfam12339 557722012269 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 557722012270 HSP70 interaction site [polypeptide binding]; other site 557722012271 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 557722012272 hypothetical protein; Provisional; Region: PRK04860 557722012273 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 557722012274 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557722012275 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557722012276 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722012277 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722012278 active site 557722012279 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 557722012280 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 557722012281 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 557722012282 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 557722012283 C-terminal domain interface [polypeptide binding]; other site 557722012284 GSH binding site (G-site) [chemical binding]; other site 557722012285 dimer interface [polypeptide binding]; other site 557722012286 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 557722012287 dimer interface [polypeptide binding]; other site 557722012288 N-terminal domain interface [polypeptide binding]; other site 557722012289 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722012290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012291 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 557722012292 dimerization interface [polypeptide binding]; other site 557722012293 substrate binding pocket [chemical binding]; other site 557722012294 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 557722012295 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557722012296 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722012297 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722012298 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722012299 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 557722012300 putative diguanylate cyclase; Provisional; Region: PRK09776 557722012301 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 557722012302 putative active site [active] 557722012303 heme pocket [chemical binding]; other site 557722012304 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 557722012305 putative active site [active] 557722012306 heme pocket [chemical binding]; other site 557722012307 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 557722012308 putative active site [active] 557722012309 heme pocket [chemical binding]; other site 557722012310 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722012311 metal binding site [ion binding]; metal-binding site 557722012312 active site 557722012313 I-site; other site 557722012314 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 557722012315 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 557722012316 dimer interface [polypeptide binding]; other site 557722012317 phosphorylation site [posttranslational modification] 557722012318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722012319 ATP binding site [chemical binding]; other site 557722012320 G-X-G motif; other site 557722012321 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 557722012322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722012323 active site 557722012324 phosphorylation site [posttranslational modification] 557722012325 intermolecular recognition site; other site 557722012326 dimerization interface [polypeptide binding]; other site 557722012327 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 557722012328 DNA binding site [nucleotide binding] 557722012329 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 557722012330 Periplasmic nitrate reductase system, NapE component [Energy production and conversion]; Region: NapE; COG4459 557722012331 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 557722012332 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557722012333 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557722012334 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 557722012335 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 557722012336 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 557722012337 [4Fe-4S] binding site [ion binding]; other site 557722012338 molybdopterin cofactor binding site; other site 557722012339 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 557722012340 molybdopterin cofactor binding site; other site 557722012341 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 557722012342 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 557722012343 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 557722012344 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557722012345 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 557722012346 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722012347 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 557722012348 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557722012349 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 557722012350 Lipoxygenase; Region: Lipoxygenase; pfam00305 557722012351 Alginate lyase; Region: Alginate_lyase2; pfam08787 557722012352 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 557722012353 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722012354 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 557722012355 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 557722012356 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 557722012357 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 557722012358 putative ATP binding site [chemical binding]; other site 557722012359 putative substrate interface [chemical binding]; other site 557722012360 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 557722012361 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557722012362 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 557722012363 active site 557722012364 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 557722012365 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 557722012366 metal binding site [ion binding]; metal-binding site 557722012367 dimer interface [polypeptide binding]; other site 557722012368 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 557722012369 Methyltransferase domain; Region: Methyltransf_11; pfam08241 557722012370 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 557722012371 DNA-binding site [nucleotide binding]; DNA binding site 557722012372 RNA-binding motif; other site 557722012373 sensor protein RstB; Provisional; Region: PRK10604 557722012374 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 557722012375 dimerization interface [polypeptide binding]; other site 557722012376 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 557722012377 dimer interface [polypeptide binding]; other site 557722012378 phosphorylation site [posttranslational modification] 557722012379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722012380 ATP binding site [chemical binding]; other site 557722012381 Mg2+ binding site [ion binding]; other site 557722012382 G-X-G motif; other site 557722012383 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 557722012384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722012385 active site 557722012386 phosphorylation site [posttranslational modification] 557722012387 intermolecular recognition site; other site 557722012388 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 557722012389 DNA binding site [nucleotide binding] 557722012390 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 557722012391 ATP cone domain; Region: ATP-cone; pfam03477 557722012392 ATP cone domain; Region: ATP-cone; pfam03477 557722012393 Class I ribonucleotide reductase; Region: RNR_I; cd01679 557722012394 active site 557722012395 dimer interface [polypeptide binding]; other site 557722012396 catalytic residues [active] 557722012397 effector binding site; other site 557722012398 R2 peptide binding site; other site 557722012399 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 557722012400 dimer interface [polypeptide binding]; other site 557722012401 putative radical transfer pathway; other site 557722012402 diiron center [ion binding]; other site 557722012403 tyrosyl radical; other site 557722012404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 557722012405 Prophage antirepressor [Transcription]; Region: COG3617 557722012406 BRO family, N-terminal domain; Region: Bro-N; cl10591 557722012407 Colicin-like bacteriocin tRNase domain; Region: Cloacin; pfam03515 557722012408 S-type Pyocin; Region: Pyocin_S; pfam06958 557722012409 Colicin D; Region: Colicin_D; pfam11429 557722012410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4893 557722012411 Exotoxin A binding; Region: Exotox-A_bind; pfam09101 557722012412 Exotoxin A, targeting; Region: Exotox-A_target; pfam09102 557722012413 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 557722012414 nad+ binding pocket [chemical binding]; other site 557722012415 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 557722012416 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557722012417 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 557722012418 putative active site [active] 557722012419 metal binding site [ion binding]; metal-binding site 557722012420 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012422 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 557722012423 dimerization interface [polypeptide binding]; other site 557722012424 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 557722012425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012426 putative substrate translocation pore; other site 557722012427 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557722012428 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557722012429 transcriptional regulator protein; Region: phnR; TIGR03337 557722012430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722012431 DNA-binding site [nucleotide binding]; DNA binding site 557722012432 UTRA domain; Region: UTRA; pfam07702 557722012433 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012435 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722012436 dimerization interface [polypeptide binding]; other site 557722012437 hypothetical protein; Provisional; Region: PRK11171 557722012438 Cupin domain; Region: Cupin_2; pfam07883 557722012439 Cupin domain; Region: Cupin_2; pfam07883 557722012440 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 557722012441 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 557722012442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012444 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722012445 dimerization interface [polypeptide binding]; other site 557722012446 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 557722012447 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 557722012448 NAD(P) binding site [chemical binding]; other site 557722012449 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 557722012450 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557722012451 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 557722012452 DNA binding residues [nucleotide binding] 557722012453 dimerization interface [polypeptide binding]; other site 557722012454 chaperone protein HchA; Provisional; Region: PRK04155 557722012455 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 557722012456 conserved cys residue [active] 557722012457 Protein of unknown function, DUF393; Region: DUF393; cl01136 557722012458 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012459 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 557722012460 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 557722012461 Ligand binding site; other site 557722012462 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 557722012463 dimer interface [polypeptide binding]; other site 557722012464 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722012465 Mn binding site [ion binding]; other site 557722012466 K binding site [ion binding]; other site 557722012467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012469 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 557722012470 putative effector binding pocket; other site 557722012471 putative dimerization interface [polypeptide binding]; other site 557722012472 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 557722012473 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722012474 active site 557722012475 catalytic tetrad [active] 557722012476 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 557722012477 NAD-dependent deacetylase; Provisional; Region: PRK00481 557722012478 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 557722012479 NAD+ binding site [chemical binding]; other site 557722012480 substrate binding site [chemical binding]; other site 557722012481 Zn binding site [ion binding]; other site 557722012482 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 557722012483 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 557722012484 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 557722012485 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 557722012486 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 557722012487 active site 557722012488 catalytic residues [active] 557722012489 metal binding site [ion binding]; metal-binding site 557722012490 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 557722012491 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 557722012492 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 557722012493 dimerization interface [polypeptide binding]; other site 557722012494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722012495 metal binding site [ion binding]; metal-binding site 557722012496 active site 557722012497 I-site; other site 557722012498 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722012499 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722012500 ligand binding site [chemical binding]; other site 557722012501 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 557722012502 S1 domain; Region: S1_2; pfam13509 557722012503 S1 domain; Region: S1_2; pfam13509 557722012504 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 557722012505 Sulfatase; Region: Sulfatase; pfam00884 557722012506 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 557722012507 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 557722012508 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557722012509 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722012510 Walker A/P-loop; other site 557722012511 ATP binding site [chemical binding]; other site 557722012512 Q-loop/lid; other site 557722012513 ABC transporter signature motif; other site 557722012514 Walker B; other site 557722012515 D-loop; other site 557722012516 H-loop/switch region; other site 557722012517 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 557722012518 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 557722012519 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 557722012520 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 557722012521 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 557722012522 RNA binding surface [nucleotide binding]; other site 557722012523 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 557722012524 active site 557722012525 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722012526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722012527 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722012529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722012530 metal binding site [ion binding]; metal-binding site 557722012531 active site 557722012532 I-site; other site 557722012533 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 557722012534 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 557722012535 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 557722012536 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 557722012537 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 557722012538 Walker A motif/ATP binding site; other site 557722012539 Walker B motif; other site 557722012540 flagellar assembly protein H; Validated; Region: fliH; PRK05687 557722012541 Flagellar assembly protein FliH; Region: FliH; pfam02108 557722012542 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 557722012543 MgtE intracellular N domain; Region: MgtE_N; smart00924 557722012544 FliG C-terminal domain; Region: FliG_C; pfam01706 557722012545 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 557722012546 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 557722012547 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 557722012548 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 557722012549 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722012550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722012551 active site 557722012552 phosphorylation site [posttranslational modification] 557722012553 intermolecular recognition site; other site 557722012554 dimerization interface [polypeptide binding]; other site 557722012555 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722012556 Walker A motif; other site 557722012557 ATP binding site [chemical binding]; other site 557722012558 Walker B motif; other site 557722012559 arginine finger; other site 557722012560 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722012561 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722012562 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 557722012563 putative active site [active] 557722012564 heme pocket [chemical binding]; other site 557722012565 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 557722012566 dimer interface [polypeptide binding]; other site 557722012567 phosphorylation site [posttranslational modification] 557722012568 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722012569 ATP binding site [chemical binding]; other site 557722012570 Mg2+ binding site [ion binding]; other site 557722012571 G-X-G motif; other site 557722012572 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722012573 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 557722012574 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722012575 Walker A motif; other site 557722012576 ATP binding site [chemical binding]; other site 557722012577 Walker B motif; other site 557722012578 arginine finger; other site 557722012579 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722012580 flagellar protein FliS; Validated; Region: fliS; PRK05685 557722012581 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 557722012582 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 557722012583 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 557722012584 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 557722012585 Uncharacterized flagellar protein FlaG [Cell motility and secretion]; Region: FlaG; COG1334 557722012586 flagellin; Provisional; Region: PRK12806 557722012587 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 557722012588 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 557722012589 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 557722012590 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 557722012591 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 557722012592 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557722012593 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 557722012594 active site 557722012595 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 557722012596 Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1213 557722012597 active site 557722012598 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557722012599 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 557722012600 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557722012601 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722012602 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722012603 S-adenosylmethionine binding site [chemical binding]; other site 557722012604 O-methyltransferase; Region: Methyltransf_2; pfam00891 557722012605 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 557722012606 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 557722012607 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 557722012608 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 557722012609 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557722012610 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 557722012611 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 557722012612 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557722012613 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 557722012614 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 557722012615 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 557722012616 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 557722012617 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 557722012618 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557722012619 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557722012620 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 557722012621 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557722012622 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 557722012623 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 557722012624 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557722012625 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 557722012626 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557722012627 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 557722012628 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 557722012629 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 557722012630 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 557722012631 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 557722012632 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 557722012633 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 557722012634 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 557722012635 Uncharacterized small conserved protein [Function unknown]; Region: COG5626 557722012636 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 557722012637 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 557722012638 dimerization interface [polypeptide binding]; other site 557722012639 ligand binding site [chemical binding]; other site 557722012640 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557722012641 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 557722012642 TM-ABC transporter signature motif; other site 557722012643 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 557722012644 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 557722012645 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 557722012646 TM-ABC transporter signature motif; other site 557722012647 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 557722012648 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557722012649 Walker A/P-loop; other site 557722012650 ATP binding site [chemical binding]; other site 557722012651 Q-loop/lid; other site 557722012652 ABC transporter signature motif; other site 557722012653 Walker B; other site 557722012654 D-loop; other site 557722012655 H-loop/switch region; other site 557722012656 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 557722012657 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557722012658 Walker A/P-loop; other site 557722012659 ATP binding site [chemical binding]; other site 557722012660 Q-loop/lid; other site 557722012661 ABC transporter signature motif; other site 557722012662 Walker B; other site 557722012663 D-loop; other site 557722012664 H-loop/switch region; other site 557722012665 NMDA receptor-regulated protein 1; Region: NARP1; pfam12569 557722012666 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 557722012667 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 557722012668 ATP binding site [chemical binding]; other site 557722012669 Mg2+ binding site [ion binding]; other site 557722012670 G-X-G motif; other site 557722012671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012673 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 557722012674 putative effector binding pocket; other site 557722012675 dimerization interface [polypeptide binding]; other site 557722012676 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 557722012677 putative NAD(P) binding site [chemical binding]; other site 557722012678 homodimer interface [polypeptide binding]; other site 557722012679 Uncharacterized conserved protein [Function unknown]; Region: COG3189 557722012680 Predicted membrane protein [Function unknown]; Region: COG3650 557722012681 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 557722012682 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557722012683 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 557722012684 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722012685 catalytic residue [active] 557722012686 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557722012687 EamA-like transporter family; Region: EamA; pfam00892 557722012688 EamA-like transporter family; Region: EamA; pfam00892 557722012689 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 557722012690 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 557722012691 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 557722012692 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 557722012693 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557722012694 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 557722012695 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 557722012696 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 557722012697 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 557722012698 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 557722012699 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 557722012700 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 557722012701 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 557722012702 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557722012703 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 557722012704 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 557722012705 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 557722012706 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 557722012707 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 557722012708 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 557722012709 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722012710 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722012711 ligand binding site [chemical binding]; other site 557722012712 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557722012713 Beta-lactamase; Region: Beta-lactamase; pfam00144 557722012714 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 557722012715 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 557722012716 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 557722012717 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 557722012718 Predicted integral membrane protein [Function unknown]; Region: COG5615 557722012719 Predicted membrane protein [Function unknown]; Region: COG3776 557722012720 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722012721 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722012722 ligand binding site [chemical binding]; other site 557722012723 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722012724 SEC-C motif; Region: SEC-C; pfam02810 557722012725 hypothetical protein; Provisional; Region: PRK04233 557722012726 Predicted membrane protein [Function unknown]; Region: COG2860 557722012727 UPF0126 domain; Region: UPF0126; pfam03458 557722012728 UPF0126 domain; Region: UPF0126; pfam03458 557722012729 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 557722012730 Water Stress and Hypersensitive response; Region: WHy; smart00769 557722012731 SEC-C motif; Region: SEC-C; pfam02810 557722012732 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 557722012733 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 557722012734 C-terminal domain interface [polypeptide binding]; other site 557722012735 GSH binding site (G-site) [chemical binding]; other site 557722012736 dimer interface [polypeptide binding]; other site 557722012737 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 557722012738 N-terminal domain interface [polypeptide binding]; other site 557722012739 putative dimer interface [polypeptide binding]; other site 557722012740 active site 557722012741 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 557722012742 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 557722012743 active site 557722012744 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 557722012745 RmuC family; Region: RmuC; pfam02646 557722012746 RES domain; Region: RES; smart00953 557722012747 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 557722012748 salt bridge; other site 557722012749 sequence-specific DNA binding site [nucleotide binding]; other site 557722012750 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 557722012751 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722012752 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722012753 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557722012754 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 557722012755 tetrameric interface [polypeptide binding]; other site 557722012756 NAD binding site [chemical binding]; other site 557722012757 catalytic residues [active] 557722012758 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557722012759 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 557722012760 outer membrane porin, OprD family; Region: OprD; pfam03573 557722012761 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 557722012762 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 557722012763 FMN binding site [chemical binding]; other site 557722012764 substrate binding site [chemical binding]; other site 557722012765 putative catalytic residue [active] 557722012766 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 557722012767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722012768 NAD(P) binding site [chemical binding]; other site 557722012769 active site 557722012770 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 557722012771 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722012772 active site 557722012773 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 557722012774 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 557722012775 substrate binding site [chemical binding]; other site 557722012776 oxyanion hole (OAH) forming residues; other site 557722012777 trimer interface [polypeptide binding]; other site 557722012778 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 557722012779 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722012780 active site 557722012781 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 557722012782 CoenzymeA binding site [chemical binding]; other site 557722012783 subunit interaction site [polypeptide binding]; other site 557722012784 PHB binding site; other site 557722012785 benzoate transport; Region: 2A0115; TIGR00895 557722012786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722012787 putative substrate translocation pore; other site 557722012788 enoyl-CoA hydratase; Region: PLN02864 557722012789 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 557722012790 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 557722012791 dimer interaction site [polypeptide binding]; other site 557722012792 substrate-binding tunnel; other site 557722012793 active site 557722012794 catalytic site [active] 557722012795 substrate binding site [chemical binding]; other site 557722012796 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 557722012797 CoA binding domain; Region: CoA_binding_2; pfam13380 557722012798 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 557722012799 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 557722012800 thiolase; Provisional; Region: PRK06158 557722012801 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 557722012802 active site 557722012803 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 557722012804 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557722012805 Bacterial transcriptional regulator; Region: IclR; pfam01614 557722012806 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557722012807 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 557722012808 active site 557722012809 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 557722012810 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 557722012811 ATP binding site [chemical binding]; other site 557722012812 active site 557722012813 substrate binding site [chemical binding]; other site 557722012814 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 557722012815 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 557722012816 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 557722012817 dihydrodipicolinate synthase; Region: dapA; TIGR00674 557722012818 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 557722012819 dimer interface [polypeptide binding]; other site 557722012820 active site 557722012821 catalytic residue [active] 557722012822 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 557722012823 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 557722012824 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 557722012825 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 557722012826 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 557722012827 catalytic triad [active] 557722012828 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557722012829 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557722012830 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 557722012831 CPxP motif; other site 557722012832 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 557722012833 Peptidase family M48; Region: Peptidase_M48; cl12018 557722012834 quinolinate synthetase; Provisional; Region: PRK09375 557722012835 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722012836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722012837 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 557722012838 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557722012839 Glutamine amidotransferase class-I; Region: GATase; pfam00117 557722012840 glutamine binding [chemical binding]; other site 557722012841 catalytic triad [active] 557722012842 anthranilate synthase component I; Provisional; Region: PRK13564 557722012843 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 557722012844 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 557722012845 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557722012846 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 557722012847 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 557722012848 dimer interface [polypeptide binding]; other site 557722012849 active site 557722012850 CoA binding pocket [chemical binding]; other site 557722012851 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 557722012852 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 557722012853 active site 557722012854 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 557722012855 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 557722012856 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 557722012857 Benzoate CoA ligase (BCL) and similar adenylate forming enzymes; Region: BCL_like; cd05919 557722012858 dimer interface [polypeptide binding]; other site 557722012859 acyl-activating enzyme (AAE) consensus motif; other site 557722012860 putative active site [active] 557722012861 putative AMP binding site [chemical binding]; other site 557722012862 putative CoA binding site [chemical binding]; other site 557722012863 chemical substrate binding site [chemical binding]; other site 557722012864 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 557722012865 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 557722012866 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 557722012867 DNA binding site [nucleotide binding] 557722012868 active site 557722012869 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557722012870 PapC N-terminal domain; Region: PapC_N; pfam13954 557722012871 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557722012872 PapC C-terminal domain; Region: PapC_C; pfam13953 557722012873 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 557722012874 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557722012875 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557722012876 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 557722012877 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 557722012878 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 557722012879 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 557722012880 nudix motif; other site 557722012881 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 557722012882 active site 557722012883 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 557722012884 Ligand Binding Site [chemical binding]; other site 557722012885 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 557722012886 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 557722012887 FeS/SAM binding site; other site 557722012888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 557722012889 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 557722012890 binding surface 557722012891 TPR motif; other site 557722012892 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722012893 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722012894 ligand binding site [chemical binding]; other site 557722012895 translocation protein TolB; Provisional; Region: tolB; PRK00178 557722012896 TolB amino-terminal domain; Region: TolB_N; pfam04052 557722012897 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557722012898 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557722012899 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557722012900 TolA protein; Region: tolA_full; TIGR02794 557722012901 TolA protein; Region: tolA_full; TIGR02794 557722012902 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 557722012903 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557722012904 TolR protein; Region: tolR; TIGR02801 557722012905 TolQ protein; Region: tolQ; TIGR02796 557722012906 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 557722012907 active site 557722012908 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 557722012909 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722012910 Walker A motif; other site 557722012911 ATP binding site [chemical binding]; other site 557722012912 Walker B motif; other site 557722012913 arginine finger; other site 557722012914 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 557722012915 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 557722012916 RuvA N terminal domain; Region: RuvA_N; pfam01330 557722012917 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 557722012918 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 557722012919 active site 557722012920 putative DNA-binding cleft [nucleotide binding]; other site 557722012921 dimer interface [polypeptide binding]; other site 557722012922 hypothetical protein; Validated; Region: PRK00110 557722012923 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 557722012924 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 557722012925 dimer interface [polypeptide binding]; other site 557722012926 anticodon binding site; other site 557722012927 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 557722012928 homodimer interface [polypeptide binding]; other site 557722012929 motif 1; other site 557722012930 active site 557722012931 motif 2; other site 557722012932 GAD domain; Region: GAD; pfam02938 557722012933 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 557722012934 active site 557722012935 motif 3; other site 557722012936 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 557722012937 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 557722012938 dimerization interface [polypeptide binding]; other site 557722012939 DPS ferroxidase diiron center [ion binding]; other site 557722012940 ion pore; other site 557722012941 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 557722012942 DNA-binding site [nucleotide binding]; DNA binding site 557722012943 RNA-binding motif; other site 557722012944 hypothetical protein; Provisional; Region: PRK00295 557722012945 HIT domain; Region: HIT; pfam01230 557722012946 nucleotide binding site/active site [active] 557722012947 HIT family signature motif; other site 557722012948 catalytic residue [active] 557722012949 outer membrane porin, OprD family; Region: OprD; pfam03573 557722012950 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 557722012951 CoenzymeA binding site [chemical binding]; other site 557722012952 subunit interaction site [polypeptide binding]; other site 557722012953 PHB binding site; other site 557722012954 prolyl-tRNA synthetase; Provisional; Region: PRK09194 557722012955 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 557722012956 dimer interface [polypeptide binding]; other site 557722012957 motif 1; other site 557722012958 active site 557722012959 motif 2; other site 557722012960 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 557722012961 putative deacylase active site [active] 557722012962 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 557722012963 active site 557722012964 motif 3; other site 557722012965 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 557722012966 anticodon binding site; other site 557722012967 acylphosphatase; Provisional; Region: PRK14442 557722012968 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 557722012969 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557722012970 catalytic residues [active] 557722012971 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 557722012972 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 557722012973 ArsC family; Region: ArsC; pfam03960 557722012974 catalytic residues [active] 557722012975 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557722012976 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722012977 Predicted membrane protein [Function unknown]; Region: COG3308 557722012978 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 557722012979 DNA replication initiation factor; Validated; Region: PRK05642 557722012980 Walker A motif; other site 557722012981 ATP binding site [chemical binding]; other site 557722012982 Walker B motif; other site 557722012983 arginine finger; other site 557722012984 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 557722012985 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 557722012986 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 557722012987 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 557722012988 dimerization interface [polypeptide binding]; other site 557722012989 putative ATP binding site [chemical binding]; other site 557722012990 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 557722012991 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 557722012992 active site 557722012993 substrate binding site [chemical binding]; other site 557722012994 cosubstrate binding site; other site 557722012995 catalytic site [active] 557722012996 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 557722012997 Transcriptional regulators [Transcription]; Region: MarR; COG1846 557722012998 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 557722012999 MarR family; Region: MarR_2; cl17246 557722013000 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 557722013001 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 557722013002 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 557722013003 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 557722013004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 557722013005 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 557722013006 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 557722013007 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 557722013008 homodimer interface [polypeptide binding]; other site 557722013009 metal binding site [ion binding]; metal-binding site 557722013010 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 557722013011 homodimer interface [polypeptide binding]; other site 557722013012 active site 557722013013 putative chemical substrate binding site [chemical binding]; other site 557722013014 metal binding site [ion binding]; metal-binding site 557722013015 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 557722013016 HD domain; Region: HD_4; pfam13328 557722013017 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557722013018 synthetase active site [active] 557722013019 NTP binding site [chemical binding]; other site 557722013020 metal binding site [ion binding]; metal-binding site 557722013021 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 557722013022 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557722013023 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 557722013024 TRAM domain; Region: TRAM; pfam01938 557722013025 cysteine synthase B; Region: cysM; TIGR01138 557722013026 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 557722013027 dimer interface [polypeptide binding]; other site 557722013028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722013029 catalytic residue [active] 557722013030 outer membrane receptor FepA; Provisional; Region: PRK13528 557722013031 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 557722013032 N-terminal plug; other site 557722013033 ligand-binding site [chemical binding]; other site 557722013034 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722013035 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 557722013036 dimerization interface [polypeptide binding]; other site 557722013037 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 557722013038 dimer interface [polypeptide binding]; other site 557722013039 phosphorylation site [posttranslational modification] 557722013040 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722013041 ATP binding site [chemical binding]; other site 557722013042 G-X-G motif; other site 557722013043 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722013044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722013045 active site 557722013046 phosphorylation site [posttranslational modification] 557722013047 intermolecular recognition site; other site 557722013048 dimerization interface [polypeptide binding]; other site 557722013049 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 557722013050 DNA binding site [nucleotide binding] 557722013051 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 557722013052 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 557722013053 dimerization interface [polypeptide binding]; other site 557722013054 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 557722013055 dimer interface [polypeptide binding]; other site 557722013056 phosphorylation site [posttranslational modification] 557722013057 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722013058 ATP binding site [chemical binding]; other site 557722013059 Mg2+ binding site [ion binding]; other site 557722013060 G-X-G motif; other site 557722013061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722013062 active site 557722013063 phosphorylation site [posttranslational modification] 557722013064 intermolecular recognition site; other site 557722013065 dimerization interface [polypeptide binding]; other site 557722013066 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 557722013067 putative binding surface; other site 557722013068 active site 557722013069 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557722013070 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 557722013071 putative ligand binding site [chemical binding]; other site 557722013072 putative NAD binding site [chemical binding]; other site 557722013073 catalytic site [active] 557722013074 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 557722013075 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 557722013076 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 557722013077 Sulfatase; Region: Sulfatase; cl17466 557722013078 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 557722013079 active site 557722013080 DNA polymerase IV; Validated; Region: PRK02406 557722013081 DNA binding site [nucleotide binding] 557722013082 Replication protein A C terminal; Region: RPA_C; pfam08784 557722013083 Predicted integral membrane protein [Function unknown]; Region: COG0392 557722013084 Uncharacterized conserved protein [Function unknown]; Region: COG2898 557722013085 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 557722013086 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 557722013087 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 557722013088 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 557722013089 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 557722013090 potassium uptake protein; Region: kup; TIGR00794 557722013091 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 557722013092 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557722013093 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 557722013094 FeS/SAM binding site; other site 557722013095 TRAM domain; Region: TRAM; pfam01938 557722013096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 557722013097 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 557722013098 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 557722013099 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 557722013100 MgtE intracellular N domain; Region: MgtE_N; smart00924 557722013101 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 557722013102 Divalent cation transporter; Region: MgtE; pfam01769 557722013103 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 557722013104 Protein of unknown function (DUF754); Region: DUF754; pfam05449 557722013105 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 557722013106 non-specific DNA binding site [nucleotide binding]; other site 557722013107 Predicted transcriptional regulator [Transcription]; Region: COG2932 557722013108 salt bridge; other site 557722013109 sequence-specific DNA binding site [nucleotide binding]; other site 557722013110 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 557722013111 Catalytic site [active] 557722013112 carbon storage regulator; Provisional; Region: PRK01712 557722013113 aspartate kinase; Reviewed; Region: PRK06635 557722013114 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 557722013115 putative nucleotide binding site [chemical binding]; other site 557722013116 putative catalytic residues [active] 557722013117 putative Mg ion binding site [ion binding]; other site 557722013118 putative aspartate binding site [chemical binding]; other site 557722013119 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 557722013120 putative allosteric regulatory site; other site 557722013121 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 557722013122 putative allosteric regulatory residue; other site 557722013123 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 557722013124 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 557722013125 motif 1; other site 557722013126 active site 557722013127 motif 2; other site 557722013128 motif 3; other site 557722013129 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 557722013130 DHHA1 domain; Region: DHHA1; pfam02272 557722013131 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 557722013132 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 557722013133 tetramer interface [polypeptide binding]; other site 557722013134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722013135 catalytic residue [active] 557722013136 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 557722013137 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 557722013138 putative active site [active] 557722013139 Zn binding site [ion binding]; other site 557722013140 succinylarginine dihydrolase; Provisional; Region: PRK13281 557722013141 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 557722013142 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 557722013143 NAD(P) binding site [chemical binding]; other site 557722013144 catalytic residues [active] 557722013145 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 557722013146 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 557722013147 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 557722013148 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 557722013149 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 557722013150 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 557722013151 inhibitor-cofactor binding pocket; inhibition site 557722013152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722013153 catalytic residue [active] 557722013154 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 557722013155 conserved cys residue [active] 557722013156 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013157 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722013158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013159 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 557722013160 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557722013161 Walker A/P-loop; other site 557722013162 ATP binding site [chemical binding]; other site 557722013163 Q-loop/lid; other site 557722013164 ABC transporter signature motif; other site 557722013165 Walker B; other site 557722013166 D-loop; other site 557722013167 H-loop/switch region; other site 557722013168 Predicted deacylase [General function prediction only]; Region: COG3608 557722013169 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 557722013170 active site 557722013171 Zn binding site [ion binding]; other site 557722013172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722013173 dimer interface [polypeptide binding]; other site 557722013174 conserved gate region; other site 557722013175 putative PBP binding loops; other site 557722013176 ABC-ATPase subunit interface; other site 557722013177 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722013178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722013179 dimer interface [polypeptide binding]; other site 557722013180 conserved gate region; other site 557722013181 putative PBP binding loops; other site 557722013182 ABC-ATPase subunit interface; other site 557722013183 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 557722013184 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 557722013185 substrate binding pocket [chemical binding]; other site 557722013186 membrane-bound complex binding site; other site 557722013187 hinge residues; other site 557722013188 acetyl-CoA synthetase; Provisional; Region: PRK00174 557722013189 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 557722013190 active site 557722013191 CoA binding site [chemical binding]; other site 557722013192 acyl-activating enzyme (AAE) consensus motif; other site 557722013193 AMP binding site [chemical binding]; other site 557722013194 acetate binding site [chemical binding]; other site 557722013195 DctM-like transporters; Region: DctM; pfam06808 557722013196 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557722013197 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557722013198 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557722013199 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557722013200 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 557722013201 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557722013202 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557722013203 MmgE/PrpD family; Region: MmgE_PrpD; pfam03972 557722013204 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 557722013205 dimer interface [polypeptide binding]; other site 557722013206 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722013207 metal binding site [ion binding]; metal-binding site 557722013208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722013209 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722013210 active site 557722013211 Uncharacterized conserved protein [Function unknown]; Region: COG3777 557722013212 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 557722013213 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 557722013214 active site 2 [active] 557722013215 active site 1 [active] 557722013216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722013217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013218 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 557722013219 putative dimerization interface [polypeptide binding]; other site 557722013220 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722013221 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013222 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 557722013223 putative effector binding pocket; other site 557722013224 dimerization interface [polypeptide binding]; other site 557722013225 Fusaric acid resistance protein family; Region: FUSC; pfam04632 557722013226 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 557722013227 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 557722013228 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 557722013229 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 557722013230 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 557722013231 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 557722013232 putative active site [active] 557722013233 heme pocket [chemical binding]; other site 557722013234 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722013235 Walker A motif; other site 557722013236 ATP binding site [chemical binding]; other site 557722013237 Walker B motif; other site 557722013238 arginine finger; other site 557722013239 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 557722013240 cofactor binding site; other site 557722013241 metal binding site [ion binding]; metal-binding site 557722013242 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 557722013243 aromatic arch; other site 557722013244 DCoH dimer interaction site [polypeptide binding]; other site 557722013245 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 557722013246 DCoH tetramer interaction site [polypeptide binding]; other site 557722013247 substrate binding site [chemical binding]; other site 557722013248 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 557722013249 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 557722013250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722013251 homodimer interface [polypeptide binding]; other site 557722013252 catalytic residue [active] 557722013253 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 557722013254 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 557722013255 hypothetical protein; Provisional; Region: PRK09256 557722013256 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 557722013257 lysozyme inhibitor; Provisional; Region: PRK13792 557722013258 Predicted periplasmic protein [General function prediction only]; Region: COG3895 557722013259 aromatic amino acid transporter; Provisional; Region: PRK10238 557722013260 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 557722013261 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 557722013262 dimer interface [polypeptide binding]; other site 557722013263 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 557722013264 active site 557722013265 Fe binding site [ion binding]; other site 557722013266 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722013267 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722013268 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013270 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 557722013271 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557722013272 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 557722013273 putative NAD(P) binding site [chemical binding]; other site 557722013274 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 557722013275 PAS domain S-box; Region: sensory_box; TIGR00229 557722013276 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 557722013277 putative active site [active] 557722013278 heme pocket [chemical binding]; other site 557722013279 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722013280 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722013281 metal binding site [ion binding]; metal-binding site 557722013282 active site 557722013283 I-site; other site 557722013284 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 557722013285 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557722013286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722013287 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557722013288 Walker A/P-loop; other site 557722013289 ATP binding site [chemical binding]; other site 557722013290 Q-loop/lid; other site 557722013291 ABC transporter signature motif; other site 557722013292 Walker B; other site 557722013293 D-loop; other site 557722013294 H-loop/switch region; other site 557722013295 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 557722013296 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 557722013297 catalytic residues [active] 557722013298 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 557722013299 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 557722013300 active site residue [active] 557722013301 BolA-like protein; Region: BolA; cl00386 557722013302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 557722013303 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 557722013304 fumarate hydratase; Provisional; Region: PRK12425 557722013305 Class II fumarases; Region: Fumarase_classII; cd01362 557722013306 active site 557722013307 tetramer interface [polypeptide binding]; other site 557722013308 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 557722013309 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722013310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 557722013311 Chitin binding domain; Region: Chitin_bind_3; pfam03067 557722013312 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 557722013313 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 557722013314 tetramer interface [polypeptide binding]; other site 557722013315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722013316 catalytic residue [active] 557722013317 MAPEG family; Region: MAPEG; pfam01124 557722013318 thioredoxin reductase; Provisional; Region: PRK10262 557722013319 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722013320 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722013321 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 557722013322 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 557722013323 dimer interface [polypeptide binding]; other site 557722013324 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557722013325 catalytic triad [active] 557722013326 peroxidatic and resolving cysteines [active] 557722013327 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 557722013328 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 557722013329 dimerization interface [polypeptide binding]; other site 557722013330 PAS domain S-box; Region: sensory_box; TIGR00229 557722013331 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 557722013332 putative active site [active] 557722013333 heme pocket [chemical binding]; other site 557722013334 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722013335 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722013336 metal binding site [ion binding]; metal-binding site 557722013337 active site 557722013338 I-site; other site 557722013339 putative sulfate transport protein CysZ; Validated; Region: PRK04949 557722013340 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; pfam04734 557722013341 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 557722013342 Phosphoesterase family; Region: Phosphoesterase; pfam04185 557722013343 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557722013344 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557722013345 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 557722013346 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722013347 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 557722013348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 557722013349 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 557722013350 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722013351 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 557722013352 putative active site [active] 557722013353 putative FMN binding site [chemical binding]; other site 557722013354 putative substrate binding site [chemical binding]; other site 557722013355 putative catalytic residue [active] 557722013356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722013357 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722013358 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 557722013359 catalytic residues [active] 557722013360 dimer interface [polypeptide binding]; other site 557722013361 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 557722013362 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557722013363 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 557722013364 propionate/acetate kinase; Provisional; Region: PRK12379 557722013365 phosphate acetyltransferase; Reviewed; Region: PRK05632 557722013366 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 557722013367 DRTGG domain; Region: DRTGG; pfam07085 557722013368 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 557722013369 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557722013370 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 557722013371 putative acyl-acceptor binding pocket; other site 557722013372 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722013373 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722013374 ligand binding site [chemical binding]; other site 557722013375 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557722013376 LESGI-5 557722013377 integrase; Provisional; Region: int; PHA02601 557722013378 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 557722013379 active site 557722013380 DNA binding site [nucleotide binding] 557722013381 Int/Topo IB signature motif; other site 557722013382 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557722013383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722013384 Coenzyme A binding pocket [chemical binding]; other site 557722013385 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 557722013386 replicative DNA helicase; Provisional; Region: PRK05973 557722013387 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 557722013388 Catalytic domain of Protein Kinases; Region: PKc; cd00180 557722013389 active site 557722013390 ATP binding site [chemical binding]; other site 557722013391 substrate binding site [chemical binding]; other site 557722013392 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557722013393 activation loop (A-loop); other site 557722013394 activation loop (A-loop); other site 557722013395 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 557722013396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 557722013397 HTH-like domain; Region: HTH_21; pfam13276 557722013398 Integrase core domain; Region: rve; pfam00665 557722013399 Integrase core domain; Region: rve_3; pfam13683 557722013400 Transposase; Region: HTH_Tnp_1; pfam01527 557722013401 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 557722013402 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 557722013403 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 557722013404 TraX protein; Region: TraX; pfam05857 557722013405 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 557722013406 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722013407 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722013408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013409 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557722013410 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557722013411 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722013412 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 557722013413 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 557722013414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722013415 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 557722013416 Uncharacterized conserved protein [Function unknown]; Region: COG4104 557722013417 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 557722013418 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 557722013419 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 557722013420 non-specific DNA binding site [nucleotide binding]; other site 557722013421 salt bridge; other site 557722013422 sequence-specific DNA binding site [nucleotide binding]; other site 557722013423 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 557722013424 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722013425 putative metal binding site [ion binding]; other site 557722013426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722013427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013428 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 557722013429 putative dimerization interface [polypeptide binding]; other site 557722013430 cell density-dependent motility repressor; Provisional; Region: PRK10082 557722013431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013432 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 557722013433 dimerization interface [polypeptide binding]; other site 557722013434 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 557722013435 homotrimer interaction site [polypeptide binding]; other site 557722013436 putative active site [active] 557722013437 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557722013438 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 557722013439 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722013440 catalytic residue [active] 557722013441 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 557722013442 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722013443 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722013444 putative substrate translocation pore; other site 557722013445 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 557722013446 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 557722013447 motif II; other site 557722013448 manganese transport protein MntH; Reviewed; Region: PRK00701 557722013449 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 557722013450 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 557722013451 putative hydrophobic ligand binding site [chemical binding]; other site 557722013452 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 557722013453 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 557722013454 amidase catalytic site [active] 557722013455 Zn binding residues [ion binding]; other site 557722013456 substrate binding site [chemical binding]; other site 557722013457 Predicted membrane protein [Function unknown]; Region: COG4270 557722013458 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 557722013459 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722013460 active site 557722013461 catalytic tetrad [active] 557722013462 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 557722013463 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722013464 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 557722013465 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557722013466 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 557722013467 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557722013468 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 557722013469 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 557722013470 ATP binding site [chemical binding]; other site 557722013471 putative Mg++ binding site [ion binding]; other site 557722013472 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 557722013473 nucleotide binding region [chemical binding]; other site 557722013474 ATP-binding site [chemical binding]; other site 557722013475 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722013476 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722013477 S-adenosylmethionine binding site [chemical binding]; other site 557722013478 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557722013479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722013480 DNA-binding site [nucleotide binding]; DNA binding site 557722013481 FCD domain; Region: FCD; pfam07729 557722013482 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 557722013483 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 557722013484 tetramer interface [polypeptide binding]; other site 557722013485 active site 557722013486 Mg2+/Mn2+ binding site [ion binding]; other site 557722013487 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 557722013488 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 557722013489 dimer interface [polypeptide binding]; other site 557722013490 active site 557722013491 citrylCoA binding site [chemical binding]; other site 557722013492 oxalacetate/citrate binding site [chemical binding]; other site 557722013493 coenzyme A binding site [chemical binding]; other site 557722013494 catalytic triad [active] 557722013495 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 557722013496 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 557722013497 substrate binding site [chemical binding]; other site 557722013498 ligand binding site [chemical binding]; other site 557722013499 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 557722013500 substrate binding site [chemical binding]; other site 557722013501 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 557722013502 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 557722013503 2-methylcitrate dehydratase; Region: prpD; TIGR02330 557722013504 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722013505 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722013506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013507 Predicted permeases [General function prediction only]; Region: COG0730 557722013508 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557722013509 Spore germination protein; Region: Spore_permease; cl17796 557722013510 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 557722013511 Transglycosylase; Region: Transgly; cl17702 557722013512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 557722013513 Predicted ATPase [General function prediction only]; Region: COG4637 557722013514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722013515 Walker A/P-loop; other site 557722013516 ATP binding site [chemical binding]; other site 557722013517 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 557722013518 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 557722013519 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722013520 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722013521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013522 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 557722013523 dimerization interface [polypeptide binding]; other site 557722013524 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 557722013525 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 557722013526 Na binding site [ion binding]; other site 557722013527 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 557722013528 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 557722013529 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 557722013530 Glutamate binding site [chemical binding]; other site 557722013531 NAD binding site [chemical binding]; other site 557722013532 catalytic residues [active] 557722013533 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 557722013534 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 557722013535 N-terminal plug; other site 557722013536 ligand-binding site [chemical binding]; other site 557722013537 Cupin domain; Region: Cupin_2; cl17218 557722013538 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722013539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013540 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013541 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 557722013542 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722013543 Walker A motif; other site 557722013544 ATP binding site [chemical binding]; other site 557722013545 Walker B motif; other site 557722013546 arginine finger; other site 557722013547 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557722013548 Predicted secreted protein [Function unknown]; Region: COG5513 557722013549 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 557722013550 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 557722013551 membrane-bound complex binding site; other site 557722013552 hinge residues; other site 557722013553 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722013554 S-adenosylmethionine binding site [chemical binding]; other site 557722013555 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722013556 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722013557 S-adenosylmethionine binding site [chemical binding]; other site 557722013558 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 557722013559 active site 557722013560 hydrophilic channel; other site 557722013561 dimerization interface [polypeptide binding]; other site 557722013562 catalytic residues [active] 557722013563 active site lid [active] 557722013564 Recombination protein O N terminal; Region: RecO_N; pfam11967 557722013565 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 557722013566 Recombination protein O C terminal; Region: RecO_C; pfam02565 557722013567 GTPase Era; Reviewed; Region: era; PRK00089 557722013568 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 557722013569 G1 box; other site 557722013570 GTP/Mg2+ binding site [chemical binding]; other site 557722013571 Switch I region; other site 557722013572 G2 box; other site 557722013573 Switch II region; other site 557722013574 G3 box; other site 557722013575 G4 box; other site 557722013576 G5 box; other site 557722013577 KH domain; Region: KH_2; pfam07650 557722013578 ribonuclease III; Reviewed; Region: rnc; PRK00102 557722013579 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 557722013580 dimerization interface [polypeptide binding]; other site 557722013581 active site 557722013582 metal binding site [ion binding]; metal-binding site 557722013583 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 557722013584 dsRNA binding site [nucleotide binding]; other site 557722013585 signal peptidase I; Provisional; Region: PRK10861 557722013586 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 557722013587 Catalytic site [active] 557722013588 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 557722013589 GTP-binding protein LepA; Provisional; Region: PRK05433 557722013590 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 557722013591 G1 box; other site 557722013592 putative GEF interaction site [polypeptide binding]; other site 557722013593 GTP/Mg2+ binding site [chemical binding]; other site 557722013594 Switch I region; other site 557722013595 G2 box; other site 557722013596 G3 box; other site 557722013597 Switch II region; other site 557722013598 G4 box; other site 557722013599 G5 box; other site 557722013600 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 557722013601 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 557722013602 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 557722013603 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 557722013604 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557722013605 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 557722013606 protein binding site [polypeptide binding]; other site 557722013607 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 557722013608 protein binding site [polypeptide binding]; other site 557722013609 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 557722013610 MucB/RseB family; Region: MucB_RseB; pfam03888 557722013611 anti-sigma E factor; Provisional; Region: rseB; PRK09455 557722013612 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 557722013613 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 557722013614 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 557722013615 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 557722013616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722013617 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 557722013618 DNA binding residues [nucleotide binding] 557722013619 L-aspartate oxidase; Provisional; Region: PRK09077 557722013620 L-aspartate oxidase; Provisional; Region: PRK06175 557722013621 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557722013622 Uncharacterized conserved protein [Function unknown]; Region: COG2938 557722013623 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 557722013624 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 557722013625 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 557722013626 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 557722013627 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722013628 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 557722013629 dimer interface [polypeptide binding]; other site 557722013630 phosphorylation site [posttranslational modification] 557722013631 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722013632 ATP binding site [chemical binding]; other site 557722013633 G-X-G motif; other site 557722013634 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 557722013635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722013636 active site 557722013637 phosphorylation site [posttranslational modification] 557722013638 intermolecular recognition site; other site 557722013639 dimerization interface [polypeptide binding]; other site 557722013640 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 557722013641 DNA binding site [nucleotide binding] 557722013642 outer membrane porin, OprD family; Region: OprD; pfam03573 557722013643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 557722013644 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 557722013645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 557722013646 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 557722013647 Putative ammonia monooxygenase; Region: AmoA; pfam05145 557722013648 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 557722013649 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 557722013650 ligand binding site [chemical binding]; other site 557722013651 active site 557722013652 UGI interface [polypeptide binding]; other site 557722013653 catalytic site [active] 557722013654 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 557722013655 VanW like protein; Region: VanW; pfam04294 557722013656 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557722013657 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 557722013658 tetrameric interface [polypeptide binding]; other site 557722013659 NAD binding site [chemical binding]; other site 557722013660 catalytic residues [active] 557722013661 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722013662 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 557722013663 substrate binding pocket [chemical binding]; other site 557722013664 FAD binding site [chemical binding]; other site 557722013665 catalytic base [active] 557722013666 enoyl-CoA hydratase; Provisional; Region: PRK09076 557722013667 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 557722013668 substrate binding site [chemical binding]; other site 557722013669 oxyanion hole (OAH) forming residues; other site 557722013670 trimer interface [polypeptide binding]; other site 557722013671 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 557722013672 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 557722013673 substrate binding site [chemical binding]; other site 557722013674 oxyanion hole (OAH) forming residues; other site 557722013675 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 557722013676 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557722013677 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 557722013678 Ion channel; Region: Ion_trans_2; pfam07885 557722013679 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 557722013680 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557722013681 NAD binding site [chemical binding]; other site 557722013682 substrate binding site [chemical binding]; other site 557722013683 putative active site [active] 557722013684 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 557722013685 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557722013686 SCP-2 sterol transfer family; Region: SCP2; pfam02036 557722013687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722013688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013689 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722013690 dimerization interface [polypeptide binding]; other site 557722013691 Predicted membrane protein [Function unknown]; Region: COG3776 557722013692 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 557722013693 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 557722013694 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 557722013695 RNA binding surface [nucleotide binding]; other site 557722013696 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 557722013697 active site 557722013698 uracil binding [chemical binding]; other site 557722013699 hypothetical protein; Provisional; Region: PRK06132 557722013700 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557722013701 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 557722013702 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722013703 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 557722013704 hypothetical protein; Provisional; Region: PRK13687 557722013705 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557722013706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722013707 Coenzyme A binding pocket [chemical binding]; other site 557722013708 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722013709 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 557722013710 dimer interface [polypeptide binding]; other site 557722013711 active site 557722013712 metal binding site [ion binding]; metal-binding site 557722013713 glutathione binding site [chemical binding]; other site 557722013714 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557722013715 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722013716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013717 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 557722013718 dimerization interface [polypeptide binding]; other site 557722013719 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 557722013720 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 557722013721 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 557722013722 active site 557722013723 substrate binding site [chemical binding]; other site 557722013724 trimer interface [polypeptide binding]; other site 557722013725 CoA binding site [chemical binding]; other site 557722013726 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557722013727 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 557722013728 active site 557722013729 amidase; Provisional; Region: PRK07042 557722013730 Amidase; Region: Amidase; pfam01425 557722013731 citrate-proton symporter; Provisional; Region: PRK15075 557722013732 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722013733 putative substrate translocation pore; other site 557722013734 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 557722013735 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 557722013736 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722013737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722013738 LysR substrate binding domain; Region: LysR_substrate; pfam03466 557722013739 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 557722013740 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557722013741 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 557722013742 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 557722013743 Gram-negative bacterial tonB protein; Region: TonB; cl10048 557722013744 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557722013745 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 557722013746 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 557722013747 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 557722013748 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 557722013749 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 557722013750 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 557722013751 Surface antigen; Region: Bac_surface_Ag; pfam01103 557722013752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557722013753 haemagglutination activity domain; Region: Haemagg_act; pfam05860 557722013754 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 557722013755 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 557722013756 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 557722013757 type II secretion system protein F; Region: GspF; TIGR02120 557722013758 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722013759 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722013760 type II secretion system protein E; Region: type_II_gspE; TIGR02533 557722013761 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 557722013762 Walker A motif; other site 557722013763 ATP binding site [chemical binding]; other site 557722013764 Walker B motif; other site 557722013765 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722013766 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722013767 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722013768 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 557722013769 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557722013770 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 557722013771 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 557722013772 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 557722013773 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 557722013774 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 557722013775 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 557722013776 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 557722013777 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 557722013778 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 557722013779 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 557722013780 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 557722013781 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 557722013782 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722013783 FecR protein; Region: FecR; pfam04773 557722013784 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 557722013785 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 557722013786 DNA binding residues [nucleotide binding] 557722013787 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722013788 TonB C terminal; Region: TonB_2; pfam13103 557722013789 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 557722013790 heme binding pocket [chemical binding]; other site 557722013791 heme ligand [chemical binding]; other site 557722013792 Cell division inhibitor SulA; Region: SulA; cl01880 557722013793 DNA Polymerase Y-family; Region: PolY_like; cd03468 557722013794 active site 557722013795 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 557722013796 DNA binding site [nucleotide binding] 557722013797 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 557722013798 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 557722013799 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 557722013800 putative active site [active] 557722013801 putative PHP Thumb interface [polypeptide binding]; other site 557722013802 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 557722013803 generic binding surface II; other site 557722013804 generic binding surface I; other site 557722013805 exonuclease subunit SbcD; Provisional; Region: PRK10966 557722013806 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 557722013807 active site 557722013808 metal binding site [ion binding]; metal-binding site 557722013809 DNA binding site [nucleotide binding] 557722013810 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 557722013811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722013812 AAA domain; Region: AAA_23; pfam13476 557722013813 Walker A/P-loop; other site 557722013814 ATP binding site [chemical binding]; other site 557722013815 Q-loop/lid; other site 557722013816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722013817 ABC transporter signature motif; other site 557722013818 Walker B; other site 557722013819 D-loop; other site 557722013820 H-loop/switch region; other site 557722013821 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 557722013822 AAA domain; Region: AAA_30; pfam13604 557722013823 Family description; Region: UvrD_C_2; pfam13538 557722013824 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 557722013825 Family description; Region: UvrD_C_2; pfam13538 557722013826 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 557722013827 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 557722013828 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 557722013829 EamA-like transporter family; Region: EamA; pfam00892 557722013830 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722013831 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722013832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722013833 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 557722013834 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 557722013835 Chromate transporter; Region: Chromate_transp; pfam02417 557722013836 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722013837 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722013838 dimer interface [polypeptide binding]; other site 557722013839 putative CheW interface [polypeptide binding]; other site 557722013840 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557722013841 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557722013842 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 557722013843 PAS fold; Region: PAS_3; pfam08447 557722013844 putative active site [active] 557722013845 heme pocket [chemical binding]; other site 557722013846 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 557722013847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722013848 putative active site [active] 557722013849 heme pocket [chemical binding]; other site 557722013850 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 557722013851 dimer interface [polypeptide binding]; other site 557722013852 phosphorylation site [posttranslational modification] 557722013853 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722013854 ATP binding site [chemical binding]; other site 557722013855 Mg2+ binding site [ion binding]; other site 557722013856 G-X-G motif; other site 557722013857 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 557722013858 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 557722013859 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722013860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722013861 active site 557722013862 phosphorylation site [posttranslational modification] 557722013863 intermolecular recognition site; other site 557722013864 dimerization interface [polypeptide binding]; other site 557722013865 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 557722013866 DNA binding residues [nucleotide binding] 557722013867 dimerization interface [polypeptide binding]; other site 557722013868 Predicted membrane protein [Function unknown]; Region: COG4655 557722013869 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 557722013870 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 557722013871 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 557722013872 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722013873 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 557722013874 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722013875 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 557722013876 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 557722013877 ATP binding site [chemical binding]; other site 557722013878 Walker A motif; other site 557722013879 hexamer interface [polypeptide binding]; other site 557722013880 Walker B motif; other site 557722013881 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 557722013882 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 557722013883 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 557722013884 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 557722013885 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557722013886 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 557722013887 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 557722013888 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 557722013889 Cache domain; Region: Cache_1; pfam02743 557722013890 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 557722013891 dimerization interface [polypeptide binding]; other site 557722013892 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722013893 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722013894 dimer interface [polypeptide binding]; other site 557722013895 putative CheW interface [polypeptide binding]; other site 557722013896 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722013897 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 557722013898 Predicted deacetylase [General function prediction only]; Region: COG3233 557722013899 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 557722013900 putative active site [active] 557722013901 putative Zn binding site [ion binding]; other site 557722013902 Predicted integral membrane protein [Function unknown]; Region: COG0392 557722013903 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 557722013904 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 557722013905 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 557722013906 putative active site [active] 557722013907 putative substrate binding site [chemical binding]; other site 557722013908 putative cosubstrate binding site; other site 557722013909 catalytic site [active] 557722013910 exonuclease I; Provisional; Region: sbcB; PRK11779 557722013911 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 557722013912 active site 557722013913 catalytic site [active] 557722013914 substrate binding site [chemical binding]; other site 557722013915 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 557722013916 Protein of unknown function (DUF975); Region: DUF975; cl10504 557722013917 Predicted membrane protein/domain [Function unknown]; Region: COG1714 557722013918 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 557722013919 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 557722013920 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722013921 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557722013922 Walker A motif; other site 557722013923 ATP binding site [chemical binding]; other site 557722013924 Walker B motif; other site 557722013925 arginine finger; other site 557722013926 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 557722013927 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 557722013928 metal ion-dependent adhesion site (MIDAS); other site 557722013929 PilZ domain; Region: PilZ; pfam07238 557722013930 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 557722013931 universal stress protein UspE; Provisional; Region: PRK11175 557722013932 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 557722013933 Ligand Binding Site [chemical binding]; other site 557722013934 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 557722013935 Ligand Binding Site [chemical binding]; other site 557722013936 pyruvate kinase; Provisional; Region: PRK05826 557722013937 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 557722013938 domain interfaces; other site 557722013939 active site 557722013940 enoyl-CoA hydratase; Provisional; Region: PRK06688 557722013941 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 557722013942 substrate binding site [chemical binding]; other site 557722013943 oxyanion hole (OAH) forming residues; other site 557722013944 trimer interface [polypeptide binding]; other site 557722013945 hypothetical protein; Provisional; Region: PRK05713 557722013946 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 557722013947 catalytic loop [active] 557722013948 iron binding site [ion binding]; other site 557722013949 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 557722013950 FAD binding pocket [chemical binding]; other site 557722013951 conserved FAD binding motif [chemical binding]; other site 557722013952 phosphate binding motif [ion binding]; other site 557722013953 beta-alpha-beta structure motif; other site 557722013954 NAD binding pocket [chemical binding]; other site 557722013955 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722013956 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722013957 metal binding site [ion binding]; metal-binding site 557722013958 active site 557722013959 I-site; other site 557722013960 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 557722013961 Fumarase C-terminus; Region: Fumerase_C; pfam05683 557722013962 manganese transport protein MntH; Reviewed; Region: PRK00701 557722013963 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 557722013964 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 557722013965 intracellular protease, PfpI family; Region: PfpI; TIGR01382 557722013966 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 557722013967 conserved cys residue [active] 557722013968 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 557722013969 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 557722013970 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 557722013971 PLD-like domain; Region: PLDc_2; pfam13091 557722013972 putative active site [active] 557722013973 catalytic site [active] 557722013974 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 557722013975 PLD-like domain; Region: PLDc_2; pfam13091 557722013976 putative active site [active] 557722013977 catalytic site [active] 557722013978 YceI-like domain; Region: YceI; pfam04264 557722013979 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557722013980 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 557722013981 amidase; Provisional; Region: PRK07486 557722013982 Amidase; Region: Amidase; pfam01425 557722013983 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722013984 metabolite-proton symporter; Region: 2A0106; TIGR00883 557722013985 putative substrate translocation pore; other site 557722013986 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557722013987 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 557722013988 metal binding site [ion binding]; metal-binding site 557722013989 putative dimer interface [polypeptide binding]; other site 557722013990 YceI-like domain; Region: YceI; pfam04264 557722013991 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557722013992 Beta-lactamase; Region: Beta-lactamase; pfam00144 557722013993 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 557722013994 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557722013995 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722013996 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722013997 active site 557722013998 Putative hemolysin [General function prediction only]; Region: COG3176 557722013999 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557722014000 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557722014001 putative acyl-acceptor binding pocket; other site 557722014002 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 557722014003 Ligand Binding Site [chemical binding]; other site 557722014004 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 557722014005 Ligand Binding Site [chemical binding]; other site 557722014006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3124 557722014007 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 557722014008 dimerization interface [polypeptide binding]; other site 557722014009 putative DNA binding site [nucleotide binding]; other site 557722014010 putative Zn2+ binding site [ion binding]; other site 557722014011 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557722014012 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722014013 putative substrate translocation pore; other site 557722014014 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722014015 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 557722014016 FMN binding site [chemical binding]; other site 557722014017 active site 557722014018 substrate binding site [chemical binding]; other site 557722014019 catalytic residue [active] 557722014020 FeoC like transcriptional regulator; Region: FeoC; cl17677 557722014021 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 557722014022 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 557722014023 G1 box; other site 557722014024 GTP/Mg2+ binding site [chemical binding]; other site 557722014025 Switch I region; other site 557722014026 G2 box; other site 557722014027 G3 box; other site 557722014028 Switch II region; other site 557722014029 G4 box; other site 557722014030 G5 box; other site 557722014031 Nucleoside recognition; Region: Gate; pfam07670 557722014032 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 557722014033 Nucleoside recognition; Region: Gate; pfam07670 557722014034 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 557722014035 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 557722014036 oligomer interface [polypeptide binding]; other site 557722014037 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557722014038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722014039 NAD(P) binding site [chemical binding]; other site 557722014040 active site 557722014041 Uncharacterized conserved protein [Function unknown]; Region: COG3268 557722014042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722014043 NAD(P) binding site [chemical binding]; other site 557722014044 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 557722014045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722014046 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 557722014047 dimerization interface [polypeptide binding]; other site 557722014048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 557722014049 ACT domain; Region: ACT_3; pfam10000 557722014050 Lysine efflux permease [General function prediction only]; Region: COG1279 557722014051 superoxide dismutase; Provisional; Region: PRK10543 557722014052 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 557722014053 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 557722014054 biofilm formation regulator HmsP; Provisional; Region: PRK11829 557722014055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722014056 metal binding site [ion binding]; metal-binding site 557722014057 active site 557722014058 I-site; other site 557722014059 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 557722014060 E3 Ubiquitin ligase; Region: GIDE; pfam12483 557722014061 LemA family; Region: LemA; pfam04011 557722014062 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 557722014063 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 557722014064 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 557722014065 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG3489 557722014066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 557722014067 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722014068 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722014069 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722014070 multidrug efflux protein; Reviewed; Region: PRK09579 557722014071 Protein export membrane protein; Region: SecD_SecF; cl14618 557722014072 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 557722014073 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 557722014074 active site 557722014075 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 557722014076 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722014077 S-adenosylmethionine binding site [chemical binding]; other site 557722014078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722014079 HAMP domain; Region: HAMP; pfam00672 557722014080 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 557722014081 dimer interface [polypeptide binding]; other site 557722014082 phosphorylation site [posttranslational modification] 557722014083 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722014084 ATP binding site [chemical binding]; other site 557722014085 Mg2+ binding site [ion binding]; other site 557722014086 G-X-G motif; other site 557722014087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557722014088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722014089 active site 557722014090 phosphorylation site [posttranslational modification] 557722014091 intermolecular recognition site; other site 557722014092 dimerization interface [polypeptide binding]; other site 557722014093 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 557722014094 DNA binding site [nucleotide binding] 557722014095 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 557722014096 active site 557722014097 chromosome condensation membrane protein; Provisional; Region: PRK14196 557722014098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 557722014099 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557722014100 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 557722014101 ring oligomerisation interface [polypeptide binding]; other site 557722014102 ATP/Mg binding site [chemical binding]; other site 557722014103 stacking interactions; other site 557722014104 hinge regions; other site 557722014105 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 557722014106 oligomerisation interface [polypeptide binding]; other site 557722014107 mobile loop; other site 557722014108 roof hairpin; other site 557722014109 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 557722014110 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 557722014111 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 557722014112 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 557722014113 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 557722014114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722014115 NAD(P) binding site [chemical binding]; other site 557722014116 active site 557722014117 Protein of unknown function, DUF481; Region: DUF481; pfam04338 557722014118 Protein of unknown function, DUF481; Region: DUF481; pfam04338 557722014119 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 557722014120 DNA binding site [nucleotide binding] 557722014121 active site 557722014122 AmpG-like permease; Region: 2A0125; TIGR00901 557722014123 muropeptide transporter; Validated; Region: ampG; cl17669 557722014124 mechanosensitive channel MscS; Provisional; Region: PRK10334 557722014125 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722014126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 557722014127 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 557722014128 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722014129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722014130 active site 557722014131 phosphorylation site [posttranslational modification] 557722014132 intermolecular recognition site; other site 557722014133 dimerization interface [polypeptide binding]; other site 557722014134 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 557722014135 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557722014136 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 557722014137 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 557722014138 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 557722014139 dimerization interface [polypeptide binding]; other site 557722014140 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 557722014141 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 557722014142 putative active site [active] 557722014143 heme pocket [chemical binding]; other site 557722014144 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 557722014145 dimer interface [polypeptide binding]; other site 557722014146 phosphorylation site [posttranslational modification] 557722014147 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722014148 ATP binding site [chemical binding]; other site 557722014149 Mg2+ binding site [ion binding]; other site 557722014150 G-X-G motif; other site 557722014151 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 557722014152 hypothetical protein; Provisional; Region: PRK08999 557722014153 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 557722014154 active site 557722014155 8-oxo-dGMP binding site [chemical binding]; other site 557722014156 nudix motif; other site 557722014157 metal binding site [ion binding]; metal-binding site 557722014158 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 557722014159 thiamine phosphate binding site [chemical binding]; other site 557722014160 active site 557722014161 pyrophosphate binding site [ion binding]; other site 557722014162 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 557722014163 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557722014164 putative C-terminal domain interface [polypeptide binding]; other site 557722014165 putative GSH binding site (G-site) [chemical binding]; other site 557722014166 putative dimer interface [polypeptide binding]; other site 557722014167 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 557722014168 putative N-terminal domain interface [polypeptide binding]; other site 557722014169 putative dimer interface [polypeptide binding]; other site 557722014170 putative substrate binding pocket (H-site) [chemical binding]; other site 557722014171 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 557722014172 heterotetramer interface [polypeptide binding]; other site 557722014173 active site pocket [active] 557722014174 cleavage site 557722014175 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 557722014176 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 557722014177 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 557722014178 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 557722014179 nucleotide binding region [chemical binding]; other site 557722014180 ATP-binding site [chemical binding]; other site 557722014181 SEC-C motif; Region: SEC-C; pfam02810 557722014182 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557722014183 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722014184 Protein of unknown function (DUF721); Region: DUF721; cl02324 557722014185 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 557722014186 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 557722014187 cell division protein FtsZ; Validated; Region: PRK09330 557722014188 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 557722014189 nucleotide binding site [chemical binding]; other site 557722014190 SulA interaction site; other site 557722014191 cell division protein FtsA; Region: ftsA; TIGR01174 557722014192 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557722014193 nucleotide binding site [chemical binding]; other site 557722014194 Cell division protein FtsA; Region: FtsA; pfam14450 557722014195 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 557722014196 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 557722014197 Cell division protein FtsQ; Region: FtsQ; pfam03799 557722014198 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 557722014199 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 557722014200 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722014201 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 557722014202 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557722014203 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557722014204 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557722014205 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 557722014206 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 557722014207 active site 557722014208 homodimer interface [polypeptide binding]; other site 557722014209 cell division protein FtsW; Region: ftsW; TIGR02614 557722014210 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 557722014211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722014212 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557722014213 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 557722014214 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 557722014215 Mg++ binding site [ion binding]; other site 557722014216 putative catalytic motif [active] 557722014217 putative substrate binding site [chemical binding]; other site 557722014218 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557722014219 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 557722014220 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557722014221 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557722014222 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 557722014223 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557722014224 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557722014225 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557722014226 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 557722014227 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557722014228 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557722014229 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 557722014230 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 557722014231 MraW methylase family; Region: Methyltransf_5; pfam01795 557722014232 cell division protein MraZ; Reviewed; Region: PRK00326 557722014233 MraZ protein; Region: MraZ; pfam02381 557722014234 MraZ protein; Region: MraZ; pfam02381 557722014235 Predicted methyltransferases [General function prediction only]; Region: COG0313 557722014236 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 557722014237 putative SAM binding site [chemical binding]; other site 557722014238 putative homodimer interface [polypeptide binding]; other site 557722014239 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 557722014240 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 557722014241 putative ligand binding site [chemical binding]; other site 557722014242 hypothetical protein; Reviewed; Region: PRK12497 557722014243 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 557722014244 dimer interface [polypeptide binding]; other site 557722014245 active site 557722014246 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 557722014247 BON domain; Region: BON; pfam04972 557722014248 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 557722014249 stringent starvation protein A; Provisional; Region: sspA; PRK09481 557722014250 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 557722014251 C-terminal domain interface [polypeptide binding]; other site 557722014252 putative GSH binding site (G-site) [chemical binding]; other site 557722014253 dimer interface [polypeptide binding]; other site 557722014254 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 557722014255 dimer interface [polypeptide binding]; other site 557722014256 N-terminal domain interface [polypeptide binding]; other site 557722014257 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 557722014258 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 557722014259 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 557722014260 Qi binding site; other site 557722014261 intrachain domain interface; other site 557722014262 interchain domain interface [polypeptide binding]; other site 557722014263 heme bH binding site [chemical binding]; other site 557722014264 heme bL binding site [chemical binding]; other site 557722014265 Qo binding site; other site 557722014266 interchain domain interface [polypeptide binding]; other site 557722014267 intrachain domain interface; other site 557722014268 Qi binding site; other site 557722014269 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 557722014270 Qo binding site; other site 557722014271 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 557722014272 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 557722014273 [2Fe-2S] cluster binding site [ion binding]; other site 557722014274 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 557722014275 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 557722014276 23S rRNA interface [nucleotide binding]; other site 557722014277 L3 interface [polypeptide binding]; other site 557722014278 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 557722014279 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722014280 active site 557722014281 catalytic tetrad [active] 557722014282 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722014283 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722014284 active site 557722014285 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557722014286 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 557722014287 conserved cys residue [active] 557722014288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722014289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722014290 Predicted ATPase [General function prediction only]; Region: COG1485 557722014291 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 557722014292 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 557722014293 active site 557722014294 HIGH motif; other site 557722014295 dimer interface [polypeptide binding]; other site 557722014296 KMSKS motif; other site 557722014297 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 557722014298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 557722014299 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 557722014300 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 557722014301 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 557722014302 CysD dimerization site [polypeptide binding]; other site 557722014303 G1 box; other site 557722014304 putative GEF interaction site [polypeptide binding]; other site 557722014305 GTP/Mg2+ binding site [chemical binding]; other site 557722014306 Switch I region; other site 557722014307 G2 box; other site 557722014308 G3 box; other site 557722014309 Switch II region; other site 557722014310 G4 box; other site 557722014311 G5 box; other site 557722014312 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 557722014313 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 557722014314 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 557722014315 ligand-binding site [chemical binding]; other site 557722014316 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 557722014317 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 557722014318 Active Sites [active] 557722014319 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 557722014320 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 557722014321 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557722014322 catalytic residue [active] 557722014323 Uncharacterized conserved protein [Function unknown]; Region: COG0327 557722014324 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 557722014325 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557722014326 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 557722014327 protein binding site [polypeptide binding]; other site 557722014328 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 557722014329 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 557722014330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722014331 homodimer interface [polypeptide binding]; other site 557722014332 catalytic residue [active] 557722014333 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 557722014334 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 557722014335 NAD binding site [chemical binding]; other site 557722014336 dimerization interface [polypeptide binding]; other site 557722014337 product binding site; other site 557722014338 substrate binding site [chemical binding]; other site 557722014339 zinc binding site [ion binding]; other site 557722014340 catalytic residues [active] 557722014341 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 557722014342 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 557722014343 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557722014344 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 557722014345 hinge; other site 557722014346 active site 557722014347 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 557722014348 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 557722014349 anti sigma factor interaction site; other site 557722014350 regulatory phosphorylation site [posttranslational modification]; other site 557722014351 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 557722014352 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 557722014353 mce related protein; Region: MCE; pfam02470 557722014354 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 557722014355 conserved hypothetical integral membrane protein; Region: TIGR00056 557722014356 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 557722014357 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 557722014358 Walker A/P-loop; other site 557722014359 ATP binding site [chemical binding]; other site 557722014360 Q-loop/lid; other site 557722014361 ABC transporter signature motif; other site 557722014362 Walker B; other site 557722014363 D-loop; other site 557722014364 H-loop/switch region; other site 557722014365 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 557722014366 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 557722014367 putative active site [active] 557722014368 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 557722014369 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 557722014370 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 557722014371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 557722014372 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 557722014373 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 557722014374 OstA-like protein; Region: OstA; pfam03968 557722014375 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 557722014376 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 557722014377 Walker A/P-loop; other site 557722014378 ATP binding site [chemical binding]; other site 557722014379 Q-loop/lid; other site 557722014380 ABC transporter signature motif; other site 557722014381 Walker B; other site 557722014382 D-loop; other site 557722014383 H-loop/switch region; other site 557722014384 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 557722014385 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 557722014386 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 557722014387 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 557722014388 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 557722014389 30S subunit binding site; other site 557722014390 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 557722014391 active site 557722014392 phosphorylation site [posttranslational modification] 557722014393 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 557722014394 AAA domain; Region: AAA_18; pfam13238 557722014395 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 557722014396 dimerization domain swap beta strand [polypeptide binding]; other site 557722014397 regulatory protein interface [polypeptide binding]; other site 557722014398 active site 557722014399 regulatory phosphorylation site [posttranslational modification]; other site 557722014400 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 557722014401 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 557722014402 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 557722014403 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 557722014404 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 557722014405 fumarate hydratase; Reviewed; Region: fumC; PRK00485 557722014406 Class II fumarases; Region: Fumarase_classII; cd01362 557722014407 active site 557722014408 tetramer interface [polypeptide binding]; other site 557722014409 peptidase PmbA; Provisional; Region: PRK11040 557722014410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 557722014411 protease TldD; Provisional; Region: tldD; PRK10735 557722014412 nitrilase; Region: PLN02798 557722014413 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 557722014414 putative active site [active] 557722014415 catalytic triad [active] 557722014416 dimer interface [polypeptide binding]; other site 557722014417 Predicted membrane protein [Function unknown]; Region: COG3164 557722014418 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 557722014419 ribonuclease G; Provisional; Region: PRK11712 557722014420 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 557722014421 homodimer interface [polypeptide binding]; other site 557722014422 oligonucleotide binding site [chemical binding]; other site 557722014423 Maf-like protein; Region: Maf; pfam02545 557722014424 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 557722014425 active site 557722014426 dimer interface [polypeptide binding]; other site 557722014427 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 557722014428 rod shape-determining protein MreC; Provisional; Region: PRK13922 557722014429 rod shape-determining protein MreC; Region: MreC; pfam04085 557722014430 rod shape-determining protein MreB; Provisional; Region: PRK13927 557722014431 MreB and similar proteins; Region: MreB_like; cd10225 557722014432 nucleotide binding site [chemical binding]; other site 557722014433 Mg binding site [ion binding]; other site 557722014434 putative protofilament interaction site [polypeptide binding]; other site 557722014435 RodZ interaction site [polypeptide binding]; other site 557722014436 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 557722014437 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 557722014438 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 557722014439 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 557722014440 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 557722014441 GatB domain; Region: GatB_Yqey; smart00845 557722014442 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 557722014443 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 557722014444 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 557722014445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 557722014446 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cl17565 557722014447 putative metal binding site [ion binding]; other site 557722014448 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 557722014449 Predicted secreted protein [Function unknown]; Region: COG5445 557722014450 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 557722014451 Predicted secreted protein [Function unknown]; Region: COG5445 557722014452 Stage II sporulation protein; Region: SpoIID; pfam08486 557722014453 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 557722014454 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 557722014455 MG2 domain; Region: A2M_N; pfam01835 557722014456 Alpha-2-macroglobulin family; Region: A2M; pfam00207 557722014457 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 557722014458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 557722014459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 557722014460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 557722014461 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 557722014462 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 557722014463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722014464 active site 557722014465 phosphorylation site [posttranslational modification] 557722014466 intermolecular recognition site; other site 557722014467 dimerization interface [polypeptide binding]; other site 557722014468 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722014469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722014470 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 557722014471 phosphorylation site [posttranslational modification] 557722014472 dimer interface [polypeptide binding]; other site 557722014473 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 557722014474 ATP binding site [chemical binding]; other site 557722014475 G-X-G motif; other site 557722014476 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 557722014477 Uncharacterized conserved protein [Function unknown]; Region: COG2968 557722014478 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557722014479 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557722014480 peptide binding site [polypeptide binding]; other site 557722014481 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557722014482 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557722014483 peptide binding site [polypeptide binding]; other site 557722014484 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557722014485 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557722014486 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 557722014487 active site 557722014488 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 557722014489 non-specific DNA binding site [nucleotide binding]; other site 557722014490 salt bridge; other site 557722014491 sequence-specific DNA binding site [nucleotide binding]; other site 557722014492 Cupin domain; Region: Cupin_2; pfam07883 557722014493 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557722014494 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557722014495 peptide binding site [polypeptide binding]; other site 557722014496 outer membrane porin, OprD family; Region: OprD; pfam03573 557722014497 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557722014498 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557722014499 peptide binding site [polypeptide binding]; other site 557722014500 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557722014501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722014502 dimer interface [polypeptide binding]; other site 557722014503 conserved gate region; other site 557722014504 putative PBP binding loops; other site 557722014505 ABC-ATPase subunit interface; other site 557722014506 dipeptide transporter; Provisional; Region: PRK10913 557722014507 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 557722014508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722014509 putative PBP binding loops; other site 557722014510 dimer interface [polypeptide binding]; other site 557722014511 ABC-ATPase subunit interface; other site 557722014512 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 557722014513 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557722014514 Walker A/P-loop; other site 557722014515 ATP binding site [chemical binding]; other site 557722014516 Q-loop/lid; other site 557722014517 ABC transporter signature motif; other site 557722014518 Walker B; other site 557722014519 D-loop; other site 557722014520 H-loop/switch region; other site 557722014521 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557722014522 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 557722014523 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557722014524 Walker A/P-loop; other site 557722014525 ATP binding site [chemical binding]; other site 557722014526 Q-loop/lid; other site 557722014527 ABC transporter signature motif; other site 557722014528 Walker B; other site 557722014529 D-loop; other site 557722014530 H-loop/switch region; other site 557722014531 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 557722014532 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 557722014533 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722014534 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 557722014535 putative DNA binding site [nucleotide binding]; other site 557722014536 putative Zn2+ binding site [ion binding]; other site 557722014537 AsnC family; Region: AsnC_trans_reg; pfam01037 557722014538 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 557722014539 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 557722014540 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 557722014541 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 557722014542 putative active site [active] 557722014543 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 557722014544 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557722014545 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 557722014546 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 557722014547 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 557722014548 Flavodoxin; Region: Flavodoxin_1; pfam00258 557722014549 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 557722014550 FAD binding pocket [chemical binding]; other site 557722014551 FAD binding motif [chemical binding]; other site 557722014552 catalytic residues [active] 557722014553 NAD binding pocket [chemical binding]; other site 557722014554 phosphate binding motif [ion binding]; other site 557722014555 beta-alpha-beta structure motif; other site 557722014556 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 557722014557 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 557722014558 N-terminal plug; other site 557722014559 ligand-binding site [chemical binding]; other site 557722014560 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 557722014561 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722014562 Sel1-like repeats; Region: SEL1; smart00671 557722014563 Sel1-like repeats; Region: SEL1; smart00671 557722014564 hypothetical protein; Provisional; Region: PRK10649 557722014565 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 557722014566 Sulfatase; Region: Sulfatase; pfam00884 557722014567 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 557722014568 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722014569 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 557722014570 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 557722014571 dimer interface [polypeptide binding]; other site 557722014572 active site 557722014573 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557722014574 catalytic residues [active] 557722014575 substrate binding site [chemical binding]; other site 557722014576 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557722014577 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 557722014578 dimerization interface [polypeptide binding]; other site 557722014579 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722014580 dimer interface [polypeptide binding]; other site 557722014581 putative CheW interface [polypeptide binding]; other site 557722014582 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 557722014583 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 557722014584 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 557722014585 amidase catalytic site [active] 557722014586 Zn binding residues [ion binding]; other site 557722014587 substrate binding site [chemical binding]; other site 557722014588 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 557722014589 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 557722014590 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 557722014591 dimerization interface [polypeptide binding]; other site 557722014592 active site 557722014593 O-Antigen ligase; Region: Wzy_C; pfam04932 557722014594 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 557722014595 Pilin (bacterial filament); Region: Pilin; pfam00114 557722014596 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 557722014597 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 557722014598 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 557722014599 Walker A motif; other site 557722014600 ATP binding site [chemical binding]; other site 557722014601 Walker B motif; other site 557722014602 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 557722014603 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722014604 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557722014605 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 557722014606 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 557722014607 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 557722014608 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 557722014609 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 557722014610 CoA-binding site [chemical binding]; other site 557722014611 ATP-binding [chemical binding]; other site 557722014612 DNA gyrase inhibitor; Reviewed; Region: PRK00418 557722014613 Predicted membrane protein [Function unknown]; Region: COG3235 557722014614 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 557722014615 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557722014616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722014617 Coenzyme A binding pocket [chemical binding]; other site 557722014618 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 557722014619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 557722014620 MOSC domain; Region: MOSC; pfam03473 557722014621 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 557722014622 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557722014623 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722014624 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 557722014625 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 557722014626 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 557722014627 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 557722014628 haemagglutination activity domain; Region: Haemagg_act; pfam05860 557722014629 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 557722014630 Clp amino terminal domain; Region: Clp_N; pfam02861 557722014631 Clp amino terminal domain; Region: Clp_N; pfam02861 557722014632 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722014633 Walker A motif; other site 557722014634 ATP binding site [chemical binding]; other site 557722014635 Walker B motif; other site 557722014636 arginine finger; other site 557722014637 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722014638 Walker A motif; other site 557722014639 ATP binding site [chemical binding]; other site 557722014640 Walker B motif; other site 557722014641 arginine finger; other site 557722014642 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557722014643 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 557722014644 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 557722014645 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 557722014646 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 557722014647 RNA binding surface [nucleotide binding]; other site 557722014648 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557722014649 active site 557722014650 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 557722014651 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 557722014652 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 557722014653 dimer interface [polypeptide binding]; other site 557722014654 phosphorylation site [posttranslational modification] 557722014655 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722014656 ATP binding site [chemical binding]; other site 557722014657 Mg2+ binding site [ion binding]; other site 557722014658 G-X-G motif; other site 557722014659 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722014660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722014661 active site 557722014662 phosphorylation site [posttranslational modification] 557722014663 intermolecular recognition site; other site 557722014664 dimerization interface [polypeptide binding]; other site 557722014665 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722014666 Walker A motif; other site 557722014667 ATP binding site [chemical binding]; other site 557722014668 Walker B motif; other site 557722014669 arginine finger; other site 557722014670 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722014671 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 557722014672 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 557722014673 Type II transport protein GspH; Region: GspH; pfam12019 557722014674 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 557722014675 Type II transport protein GspH; Region: GspH; pfam12019 557722014676 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 557722014677 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 557722014678 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 557722014679 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 557722014680 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 557722014681 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 557722014682 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 557722014683 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 557722014684 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 557722014685 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 557722014686 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 557722014687 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557722014688 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 557722014689 lipoprotein signal peptidase; Provisional; Region: PRK14787 557722014690 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 557722014691 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557722014692 active site 557722014693 HIGH motif; other site 557722014694 nucleotide binding site [chemical binding]; other site 557722014695 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557722014696 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 557722014697 active site 557722014698 KMSKS motif; other site 557722014699 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 557722014700 tRNA binding surface [nucleotide binding]; other site 557722014701 anticodon binding site; other site 557722014702 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557722014703 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 557722014704 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 557722014705 active site 557722014706 Riboflavin kinase; Region: Flavokinase; pfam01687 557722014707 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 557722014708 MviN-like protein; Region: MVIN; pfam03023 557722014709 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 557722014710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 557722014711 CreA protein; Region: CreA; pfam05981 557722014712 gamma-glutamyl kinase; Provisional; Region: PRK05429 557722014713 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 557722014714 nucleotide binding site [chemical binding]; other site 557722014715 homotetrameric interface [polypeptide binding]; other site 557722014716 putative phosphate binding site [ion binding]; other site 557722014717 putative allosteric binding site; other site 557722014718 PUA domain; Region: PUA; pfam01472 557722014719 GTPase CgtA; Reviewed; Region: obgE; PRK12298 557722014720 GTP1/OBG; Region: GTP1_OBG; pfam01018 557722014721 Obg GTPase; Region: Obg; cd01898 557722014722 G1 box; other site 557722014723 GTP/Mg2+ binding site [chemical binding]; other site 557722014724 Switch I region; other site 557722014725 G2 box; other site 557722014726 G3 box; other site 557722014727 Switch II region; other site 557722014728 G4 box; other site 557722014729 G5 box; other site 557722014730 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 557722014731 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 557722014732 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 557722014733 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557722014734 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557722014735 substrate binding pocket [chemical binding]; other site 557722014736 chain length determination region; other site 557722014737 substrate-Mg2+ binding site; other site 557722014738 catalytic residues [active] 557722014739 aspartate-rich region 1; other site 557722014740 active site lid residues [active] 557722014741 aspartate-rich region 2; other site 557722014742 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722014743 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722014744 Cytochrome c; Region: Cytochrom_C; pfam00034 557722014745 Cytochrome c [Energy production and conversion]; Region: COG3258 557722014746 Cytochrome c; Region: Cytochrom_C; pfam00034 557722014747 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 557722014748 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 557722014749 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557722014750 hypothetical protein; Provisional; Region: PRK05208 557722014751 methane monooxygenase/ammonia monooxygenase, subunit A; Region: CH4_NH3mon_ox_A; TIGR03080 557722014752 AAA domain; Region: AAA_32; pfam13654 557722014753 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557722014754 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 557722014755 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 557722014756 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 557722014757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 557722014758 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 557722014759 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 557722014760 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722014761 Walker A motif; other site 557722014762 ATP binding site [chemical binding]; other site 557722014763 Walker B motif; other site 557722014764 arginine finger; other site 557722014765 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557722014766 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 557722014767 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 557722014768 hypothetical protein; Reviewed; Region: PRK09588 557722014769 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 557722014770 active site 557722014771 NTP binding site [chemical binding]; other site 557722014772 metal binding triad [ion binding]; metal-binding site 557722014773 antibiotic binding site [chemical binding]; other site 557722014774 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 557722014775 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 557722014776 putative active site [active] 557722014777 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 557722014778 glutamate dehydrogenase; Provisional; Region: PRK09414 557722014779 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 557722014780 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 557722014781 NAD(P) binding site [chemical binding]; other site 557722014782 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 557722014783 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557722014784 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722014785 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722014786 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557722014787 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 557722014788 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557722014789 FtsX-like permease family; Region: FtsX; pfam02687 557722014790 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557722014791 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557722014792 Walker A/P-loop; other site 557722014793 ATP binding site [chemical binding]; other site 557722014794 Q-loop/lid; other site 557722014795 ABC transporter signature motif; other site 557722014796 Walker B; other site 557722014797 D-loop; other site 557722014798 H-loop/switch region; other site 557722014799 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 557722014800 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722014801 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722014802 ABC transporter; Region: ABC_tran_2; pfam12848 557722014803 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722014804 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722014805 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722014806 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 557722014807 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 557722014808 Protein export membrane protein; Region: SecD_SecF; cl14618 557722014809 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 557722014810 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722014811 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722014812 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722014813 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 557722014814 PAS domain; Region: PAS_9; pfam13426 557722014815 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 557722014816 PAS fold; Region: PAS_3; pfam08447 557722014817 putative active site [active] 557722014818 heme pocket [chemical binding]; other site 557722014819 PAS domain; Region: PAS_9; pfam13426 557722014820 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 557722014821 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 557722014822 PAS domain; Region: PAS_9; pfam13426 557722014823 putative active site [active] 557722014824 heme pocket [chemical binding]; other site 557722014825 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722014826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722014827 metal binding site [ion binding]; metal-binding site 557722014828 active site 557722014829 I-site; other site 557722014830 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 557722014831 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557722014832 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 557722014833 dimer interface [polypeptide binding]; other site 557722014834 active site 557722014835 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557722014836 folate binding site [chemical binding]; other site 557722014837 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 557722014838 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 557722014839 P-loop, Walker A motif; other site 557722014840 Base recognition motif; other site 557722014841 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 557722014842 Uncharacterized small protein [Function unknown]; Region: COG2879 557722014843 carbon starvation protein A; Provisional; Region: PRK15015 557722014844 Carbon starvation protein CstA; Region: CstA; pfam02554 557722014845 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 557722014846 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 557722014847 PilZ domain; Region: PilZ; pfam07238 557722014848 DNA repair protein RadA; Provisional; Region: PRK11823 557722014849 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 557722014850 Walker A motif/ATP binding site; other site 557722014851 ATP binding site [chemical binding]; other site 557722014852 Walker B motif; other site 557722014853 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557722014854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 557722014855 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 557722014856 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 557722014857 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 557722014858 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 557722014859 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 557722014860 tetramer interface [polypeptide binding]; other site 557722014861 heme binding pocket [chemical binding]; other site 557722014862 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 557722014863 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 557722014864 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 557722014865 ferredoxin-NADP reductase; Provisional; Region: PRK10926 557722014866 FAD binding pocket [chemical binding]; other site 557722014867 FAD binding motif [chemical binding]; other site 557722014868 phosphate binding motif [ion binding]; other site 557722014869 beta-alpha-beta structure motif; other site 557722014870 NAD binding pocket [chemical binding]; other site 557722014871 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557722014872 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557722014873 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 557722014874 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722014875 S-adenosylmethionine binding site [chemical binding]; other site 557722014876 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 557722014877 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 557722014878 XdhC Rossmann domain; Region: XdhC_C; pfam13478 557722014879 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722014880 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722014881 Cytochrome c; Region: Cytochrom_C; pfam00034 557722014882 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 557722014883 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557722014884 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557722014885 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722014886 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 557722014887 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557722014888 H+ Antiporter protein; Region: 2A0121; TIGR00900 557722014889 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 557722014890 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 557722014891 haemagglutination activity domain; Region: Haemagg_act; pfam05860 557722014892 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 557722014893 glycerate dehydrogenase; Provisional; Region: PRK06487 557722014894 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 557722014895 putative ligand binding site [chemical binding]; other site 557722014896 putative NAD binding site [chemical binding]; other site 557722014897 catalytic site [active] 557722014898 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 557722014899 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 557722014900 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722014901 S-adenosylmethionine binding site [chemical binding]; other site 557722014902 lysine transporter; Provisional; Region: PRK10836 557722014903 Predicted membrane protein [Function unknown]; Region: COG2119 557722014904 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 557722014905 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 557722014906 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 557722014907 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 557722014908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722014909 NAD(P) binding site [chemical binding]; other site 557722014910 active site 557722014911 Peptidase family M48; Region: Peptidase_M48; pfam01435 557722014912 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 557722014913 dimerization interface [polypeptide binding]; other site 557722014914 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722014915 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722014916 dimer interface [polypeptide binding]; other site 557722014917 putative CheW interface [polypeptide binding]; other site 557722014918 Uncharacterized conserved protein [Function unknown]; Region: COG2135 557722014919 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 557722014920 MgtC family; Region: MgtC; pfam02308 557722014921 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 557722014922 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 557722014923 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 557722014924 putative acyl-acceptor binding pocket; other site 557722014925 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 557722014926 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 557722014927 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 557722014928 dimer interface [polypeptide binding]; other site 557722014929 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722014930 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 557722014931 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722014932 active site 557722014933 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722014934 active site 557722014935 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 557722014936 Uncharacterized secreted protein [Function unknown]; Region: COG5430 557722014937 Uncharacterized secreted protein [Function unknown]; Region: COG5430 557722014938 Uncharacterized secreted protein [Function unknown]; Region: COG5430 557722014939 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 557722014940 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557722014941 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557722014942 PapC N-terminal domain; Region: PapC_N; pfam13954 557722014943 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557722014944 PapC C-terminal domain; Region: PapC_C; pfam13953 557722014945 Spore Coat Protein U domain; Region: SCPU; pfam05229 557722014946 Uncharacterized secreted protein [Function unknown]; Region: COG5430 557722014947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722014948 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722014949 putative substrate translocation pore; other site 557722014950 ferrochelatase; Reviewed; Region: hemH; PRK00035 557722014951 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 557722014952 C-terminal domain interface [polypeptide binding]; other site 557722014953 active site 557722014954 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 557722014955 active site 557722014956 N-terminal domain interface [polypeptide binding]; other site 557722014957 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 557722014958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722014959 NAD(P) binding site [chemical binding]; other site 557722014960 active site 557722014961 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 557722014962 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722014963 Protein of unknown function (DUF523); Region: DUF523; pfam04463 557722014964 Uncharacterized conserved protein [Function unknown]; Region: COG3272 557722014965 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 557722014966 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 557722014967 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 557722014968 DNA binding residues [nucleotide binding] 557722014969 B12 binding domain; Region: B12-binding_2; pfam02607 557722014970 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 557722014971 DNA photolyase; Region: DNA_photolyase; pfam00875 557722014972 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 557722014973 glutamate racemase; Provisional; Region: PRK00865 557722014974 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 557722014975 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 557722014976 ATP binding site [chemical binding]; other site 557722014977 substrate interface [chemical binding]; other site 557722014978 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 557722014979 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722014980 peptide chain release factor 1; Validated; Region: prfA; PRK00591 557722014981 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557722014982 RF-1 domain; Region: RF-1; pfam00472 557722014983 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 557722014984 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 557722014985 tRNA; other site 557722014986 putative tRNA binding site [nucleotide binding]; other site 557722014987 putative NADP binding site [chemical binding]; other site 557722014988 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 557722014989 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 557722014990 TPR motif; other site 557722014991 binding surface 557722014992 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 557722014993 binding surface 557722014994 TPR motif; other site 557722014995 Tetratricopeptide repeat; Region: TPR_16; pfam13432 557722014996 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 557722014997 binding surface 557722014998 TPR motif; other site 557722014999 TPR repeat; Region: TPR_11; pfam13414 557722015000 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 557722015001 binding surface 557722015002 TPR motif; other site 557722015003 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557722015004 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 557722015005 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 557722015006 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557722015007 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557722015008 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557722015009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722015010 active site 557722015011 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 557722015012 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 557722015013 5S rRNA interface [nucleotide binding]; other site 557722015014 CTC domain interface [polypeptide binding]; other site 557722015015 L16 interface [polypeptide binding]; other site 557722015016 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 557722015017 metal binding site [ion binding]; metal-binding site 557722015018 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 557722015019 putative active site [active] 557722015020 catalytic residue [active] 557722015021 GTP-binding protein YchF; Reviewed; Region: PRK09601 557722015022 YchF GTPase; Region: YchF; cd01900 557722015023 G1 box; other site 557722015024 GTP/Mg2+ binding site [chemical binding]; other site 557722015025 Switch I region; other site 557722015026 G2 box; other site 557722015027 Switch II region; other site 557722015028 G3 box; other site 557722015029 G4 box; other site 557722015030 G5 box; other site 557722015031 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 557722015032 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 557722015033 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 557722015034 non-specific DNA binding site [nucleotide binding]; other site 557722015035 salt bridge; other site 557722015036 sequence-specific DNA binding site [nucleotide binding]; other site 557722015037 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557722015038 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 557722015039 N-terminal plug; other site 557722015040 ligand-binding site [chemical binding]; other site 557722015041 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 557722015042 active site clefts [active] 557722015043 zinc binding site [ion binding]; other site 557722015044 dimer interface [polypeptide binding]; other site 557722015045 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 557722015046 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 557722015047 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722015048 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 557722015049 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557722015050 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 557722015051 mce related protein; Region: MCE; pfam02470 557722015052 mce related protein; Region: MCE; pfam02470 557722015053 mce related protein; Region: MCE; pfam02470 557722015054 mce related protein; Region: MCE; pfam02470 557722015055 mce related protein; Region: MCE; pfam02470 557722015056 mce related protein; Region: MCE; pfam02470 557722015057 Paraquat-inducible protein A; Region: PqiA; pfam04403 557722015058 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 557722015059 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 557722015060 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 557722015061 Moco binding site; other site 557722015062 metal coordination site [ion binding]; other site 557722015063 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 557722015064 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 557722015065 ketol-acid reductoisomerase; Provisional; Region: PRK05479 557722015066 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 557722015067 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 557722015068 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 557722015069 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 557722015070 putative valine binding site [chemical binding]; other site 557722015071 dimer interface [polypeptide binding]; other site 557722015072 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 557722015073 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 557722015074 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557722015075 PYR/PP interface [polypeptide binding]; other site 557722015076 dimer interface [polypeptide binding]; other site 557722015077 TPP binding site [chemical binding]; other site 557722015078 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722015079 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 557722015080 TPP-binding site [chemical binding]; other site 557722015081 dimer interface [polypeptide binding]; other site 557722015082 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 557722015083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 557722015084 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 557722015085 TPR motif; other site 557722015086 binding surface 557722015087 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 557722015088 Transglycosylase; Region: Transgly; pfam00912 557722015089 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 557722015090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 557722015091 Predicted kinase [General function prediction only]; Region: COG0645 557722015092 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 557722015093 ATP-binding site [chemical binding]; other site 557722015094 Gluconate-6-phosphate binding site [chemical binding]; other site 557722015095 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 557722015096 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 557722015097 TfoX C-terminal domain; Region: TfoX_C; pfam04994 557722015098 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 557722015099 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557722015100 ligand binding site [chemical binding]; other site 557722015101 flexible hinge region; other site 557722015102 Uncharacterized iron-regulated protein [Function unknown]; Region: PhuW; COG3016 557722015103 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 557722015104 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557722015105 Walker A/P-loop; other site 557722015106 ATP binding site [chemical binding]; other site 557722015107 Q-loop/lid; other site 557722015108 ABC transporter signature motif; other site 557722015109 Walker B; other site 557722015110 D-loop; other site 557722015111 H-loop/switch region; other site 557722015112 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557722015113 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 557722015114 ABC-ATPase subunit interface; other site 557722015115 dimer interface [polypeptide binding]; other site 557722015116 putative PBP binding regions; other site 557722015117 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 557722015118 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 557722015119 putative hemin binding site; other site 557722015120 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 557722015121 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 557722015122 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 557722015123 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 557722015124 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 557722015125 N-terminal plug; other site 557722015126 ligand-binding site [chemical binding]; other site 557722015127 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 557722015128 iron-sulfur cluster [ion binding]; other site 557722015129 [2Fe-2S] cluster binding site [ion binding]; other site 557722015130 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 557722015131 Predicted metal-binding protein [General function prediction only]; Region: COG3019 557722015132 aminotransferase; Validated; Region: PRK08175 557722015133 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 557722015134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722015135 homodimer interface [polypeptide binding]; other site 557722015136 catalytic residue [active] 557722015137 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 557722015138 Predicted metalloprotease [General function prediction only]; Region: COG2321 557722015139 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 557722015140 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 557722015141 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 557722015142 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 557722015143 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 557722015144 hypothetical protein; Provisional; Region: PRK08960 557722015145 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 557722015146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722015147 homodimer interface [polypeptide binding]; other site 557722015148 catalytic residue [active] 557722015149 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 557722015150 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 557722015151 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 557722015152 active site 557722015153 HIGH motif; other site 557722015154 nucleotide binding site [chemical binding]; other site 557722015155 KMSKS motif; other site 557722015156 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 557722015157 Na binding site [ion binding]; other site 557722015158 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557722015159 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 557722015160 putative active site [active] 557722015161 heme pocket [chemical binding]; other site 557722015162 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 557722015163 dimer interface [polypeptide binding]; other site 557722015164 phosphorylation site [posttranslational modification] 557722015165 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722015166 ATP binding site [chemical binding]; other site 557722015167 Mg2+ binding site [ion binding]; other site 557722015168 G-X-G motif; other site 557722015169 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722015170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722015171 active site 557722015172 phosphorylation site [posttranslational modification] 557722015173 intermolecular recognition site; other site 557722015174 dimerization interface [polypeptide binding]; other site 557722015175 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722015176 Walker A motif; other site 557722015177 ATP binding site [chemical binding]; other site 557722015178 Walker B motif; other site 557722015179 arginine finger; other site 557722015180 poly(A) polymerase; Region: pcnB; TIGR01942 557722015181 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557722015182 active site 557722015183 NTP binding site [chemical binding]; other site 557722015184 metal binding triad [ion binding]; metal-binding site 557722015185 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557722015186 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 557722015187 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 557722015188 catalytic center binding site [active] 557722015189 ATP binding site [chemical binding]; other site 557722015190 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 557722015191 oligomerization interface [polypeptide binding]; other site 557722015192 active site 557722015193 metal binding site [ion binding]; metal-binding site 557722015194 Pantoate-beta-alanine ligase; Region: PanC; cd00560 557722015195 pantoate--beta-alanine ligase; Region: panC; TIGR00018 557722015196 active site 557722015197 ATP-binding site [chemical binding]; other site 557722015198 pantoate-binding site; other site 557722015199 HXXH motif; other site 557722015200 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 557722015201 tetramerization interface [polypeptide binding]; other site 557722015202 active site 557722015203 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 557722015204 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 557722015205 active site 557722015206 dimer interface [polypeptide binding]; other site 557722015207 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 557722015208 dimer interface [polypeptide binding]; other site 557722015209 active site 557722015210 acetyl-CoA synthetase; Provisional; Region: PRK00174 557722015211 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 557722015212 active site 557722015213 CoA binding site [chemical binding]; other site 557722015214 acyl-activating enzyme (AAE) consensus motif; other site 557722015215 AMP binding site [chemical binding]; other site 557722015216 acetate binding site [chemical binding]; other site 557722015217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 557722015218 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 557722015219 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 557722015220 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 557722015221 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557722015222 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 557722015223 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 557722015224 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 557722015225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 557722015226 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 557722015227 BON domain; Region: BON; pfam04972 557722015228 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 557722015229 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 557722015230 RNase E interface [polypeptide binding]; other site 557722015231 trimer interface [polypeptide binding]; other site 557722015232 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 557722015233 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 557722015234 RNase E interface [polypeptide binding]; other site 557722015235 trimer interface [polypeptide binding]; other site 557722015236 active site 557722015237 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 557722015238 putative nucleic acid binding region [nucleotide binding]; other site 557722015239 G-X-X-G motif; other site 557722015240 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 557722015241 RNA binding site [nucleotide binding]; other site 557722015242 domain interface; other site 557722015243 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 557722015244 16S/18S rRNA binding site [nucleotide binding]; other site 557722015245 S13e-L30e interaction site [polypeptide binding]; other site 557722015246 25S rRNA binding site [nucleotide binding]; other site 557722015247 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 557722015248 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 557722015249 RNA binding site [nucleotide binding]; other site 557722015250 active site 557722015251 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 557722015252 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 557722015253 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 557722015254 translation initiation factor IF-2; Region: IF-2; TIGR00487 557722015255 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557722015256 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 557722015257 G1 box; other site 557722015258 putative GEF interaction site [polypeptide binding]; other site 557722015259 GTP/Mg2+ binding site [chemical binding]; other site 557722015260 Switch I region; other site 557722015261 G2 box; other site 557722015262 G3 box; other site 557722015263 Switch II region; other site 557722015264 G4 box; other site 557722015265 G5 box; other site 557722015266 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 557722015267 Translation-initiation factor 2; Region: IF-2; pfam11987 557722015268 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 557722015269 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 557722015270 NusA N-terminal domain; Region: NusA_N; pfam08529 557722015271 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 557722015272 RNA binding site [nucleotide binding]; other site 557722015273 homodimer interface [polypeptide binding]; other site 557722015274 NusA-like KH domain; Region: KH_5; pfam13184 557722015275 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 557722015276 G-X-X-G motif; other site 557722015277 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 557722015278 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 557722015279 ribosome maturation protein RimP; Reviewed; Region: PRK00092 557722015280 Sm and related proteins; Region: Sm_like; cl00259 557722015281 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 557722015282 putative oligomer interface [polypeptide binding]; other site 557722015283 putative RNA binding site [nucleotide binding]; other site 557722015284 Preprotein translocase SecG subunit; Region: SecG; pfam03840 557722015285 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 557722015286 triosephosphate isomerase; Provisional; Region: PRK14567 557722015287 substrate binding site [chemical binding]; other site 557722015288 dimer interface [polypeptide binding]; other site 557722015289 catalytic triad [active] 557722015290 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 557722015291 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 557722015292 active site 557722015293 substrate binding site [chemical binding]; other site 557722015294 metal binding site [ion binding]; metal-binding site 557722015295 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 557722015296 dihydropteroate synthase; Region: DHPS; TIGR01496 557722015297 substrate binding pocket [chemical binding]; other site 557722015298 dimer interface [polypeptide binding]; other site 557722015299 inhibitor binding site; inhibition site 557722015300 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 557722015301 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722015302 Walker A motif; other site 557722015303 ATP binding site [chemical binding]; other site 557722015304 Walker B motif; other site 557722015305 arginine finger; other site 557722015306 Peptidase family M41; Region: Peptidase_M41; pfam01434 557722015307 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 557722015308 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722015309 S-adenosylmethionine binding site [chemical binding]; other site 557722015310 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 557722015311 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557722015312 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557722015313 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557722015314 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 557722015315 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722015316 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557722015317 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557722015318 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722015319 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557722015320 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 557722015321 IMP binding site; other site 557722015322 dimer interface [polypeptide binding]; other site 557722015323 interdomain contacts; other site 557722015324 partial ornithine binding site; other site 557722015325 leucine export protein LeuE; Provisional; Region: PRK10958 557722015326 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557722015327 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 557722015328 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557722015329 catalytic site [active] 557722015330 subunit interface [polypeptide binding]; other site 557722015331 dihydrodipicolinate reductase; Provisional; Region: PRK00048 557722015332 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 557722015333 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 557722015334 chaperone protein DnaJ; Provisional; Region: PRK10767 557722015335 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 557722015336 HSP70 interaction site [polypeptide binding]; other site 557722015337 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 557722015338 substrate binding site [polypeptide binding]; other site 557722015339 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 557722015340 Zn binding sites [ion binding]; other site 557722015341 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 557722015342 dimer interface [polypeptide binding]; other site 557722015343 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 557722015344 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557722015345 nucleotide binding site [chemical binding]; other site 557722015346 GrpE; Region: GrpE; pfam01025 557722015347 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 557722015348 dimer interface [polypeptide binding]; other site 557722015349 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 557722015350 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 557722015351 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557722015352 Walker A/P-loop; other site 557722015353 ATP binding site [chemical binding]; other site 557722015354 Q-loop/lid; other site 557722015355 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557722015356 ABC transporter signature motif; other site 557722015357 Walker B; other site 557722015358 D-loop; other site 557722015359 H-loop/switch region; other site 557722015360 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557722015361 metal binding site 2 [ion binding]; metal-binding site 557722015362 putative DNA binding helix; other site 557722015363 metal binding site 1 [ion binding]; metal-binding site 557722015364 dimer interface [polypeptide binding]; other site 557722015365 structural Zn2+ binding site [ion binding]; other site 557722015366 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 557722015367 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 557722015368 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 557722015369 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 557722015370 putative coenzyme Q binding site [chemical binding]; other site 557722015371 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 557722015372 SmpB-tmRNA interface; other site 557722015373 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557722015374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722015375 DNA-binding site [nucleotide binding]; DNA binding site 557722015376 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557722015377 glycolate transporter; Provisional; Region: PRK09695 557722015378 L-lactate permease; Region: Lactate_perm; cl00701 557722015379 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 557722015380 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 557722015381 phosphate binding site [ion binding]; other site 557722015382 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557722015383 FAD binding domain; Region: FAD_binding_4; pfam01565 557722015384 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 557722015385 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 557722015386 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 557722015387 Cysteine-rich domain; Region: CCG; pfam02754 557722015388 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 557722015389 spermidine synthase; Provisional; Region: PRK00811 557722015390 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722015391 S-adenosylmethionine binding site [chemical binding]; other site 557722015392 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 557722015393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722015394 active site 557722015395 phosphorylation site [posttranslational modification] 557722015396 intermolecular recognition site; other site 557722015397 dimerization interface [polypeptide binding]; other site 557722015398 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 557722015399 DNA binding site [nucleotide binding] 557722015400 sensor protein QseC; Provisional; Region: PRK10337 557722015401 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 557722015402 dimer interface [polypeptide binding]; other site 557722015403 phosphorylation site [posttranslational modification] 557722015404 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722015405 ATP binding site [chemical binding]; other site 557722015406 Mg2+ binding site [ion binding]; other site 557722015407 G-X-G motif; other site 557722015408 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557722015409 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 557722015410 DNA binding residues [nucleotide binding] 557722015411 dimer interface [polypeptide binding]; other site 557722015412 copper binding site [ion binding]; other site 557722015413 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 557722015414 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 557722015415 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 557722015416 ATP binding site [chemical binding]; other site 557722015417 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 557722015418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722015419 active site 557722015420 phosphorylation site [posttranslational modification] 557722015421 intermolecular recognition site; other site 557722015422 dimerization interface [polypeptide binding]; other site 557722015423 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722015424 Zn2+ binding site [ion binding]; other site 557722015425 Mg2+ binding site [ion binding]; other site 557722015426 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 557722015427 EamA-like transporter family; Region: EamA; pfam00892 557722015428 EamA-like transporter family; Region: EamA; pfam00892 557722015429 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722015430 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 557722015431 putative DNA binding site [nucleotide binding]; other site 557722015432 putative Zn2+ binding site [ion binding]; other site 557722015433 AsnC family; Region: AsnC_trans_reg; pfam01037 557722015434 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 557722015435 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 557722015436 dimer interface [polypeptide binding]; other site 557722015437 active site 557722015438 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722015439 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722015440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722015441 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 557722015442 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 557722015443 active site 2 [active] 557722015444 active site 1 [active] 557722015445 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 557722015446 homodimer interface [polypeptide binding]; other site 557722015447 chemical substrate binding site [chemical binding]; other site 557722015448 oligomer interface [polypeptide binding]; other site 557722015449 metal binding site [ion binding]; metal-binding site 557722015450 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722015451 S-adenosylmethionine binding site [chemical binding]; other site 557722015452 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 557722015453 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 557722015454 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 557722015455 putative active site [active] 557722015456 catalytic site [active] 557722015457 putative metal binding site [ion binding]; other site 557722015458 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 557722015459 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557722015460 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722015461 Coenzyme A binding pocket [chemical binding]; other site 557722015462 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 557722015463 glycine cleavage system protein H; Provisional; Region: PRK13380 557722015464 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 557722015465 lipoyl attachment site [posttranslational modification]; other site 557722015466 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 557722015467 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 557722015468 AAA domain; Region: AAA_17; pfam13207 557722015469 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722015470 S-adenosylmethionine binding site [chemical binding]; other site 557722015471 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557722015472 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 557722015473 active site 557722015474 catalytic triad [active] 557722015475 dimer interface [polypeptide binding]; other site 557722015476 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722015477 S-adenosylmethionine binding site [chemical binding]; other site 557722015478 Amino acid permease; Region: AA_permease; pfam00324 557722015479 hypothetical protein; Provisional; Region: PRK07036 557722015480 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 557722015481 inhibitor-cofactor binding pocket; inhibition site 557722015482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722015483 catalytic residue [active] 557722015484 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557722015485 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 557722015486 DNA binding residues [nucleotide binding] 557722015487 dimerization interface [polypeptide binding]; other site 557722015488 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 557722015489 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 557722015490 G1 box; other site 557722015491 putative GEF interaction site [polypeptide binding]; other site 557722015492 GTP/Mg2+ binding site [chemical binding]; other site 557722015493 Switch I region; other site 557722015494 G2 box; other site 557722015495 G3 box; other site 557722015496 Switch II region; other site 557722015497 G4 box; other site 557722015498 G5 box; other site 557722015499 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 557722015500 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 557722015501 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 557722015502 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 557722015503 selenocysteine synthase; Provisional; Region: PRK04311 557722015504 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 557722015505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722015506 catalytic residue [active] 557722015507 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 557722015508 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 557722015509 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 557722015510 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 557722015511 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 557722015512 4Fe-4S binding domain; Region: Fer4; cl02805 557722015513 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 557722015514 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 557722015515 molybdopterin cofactor binding site; other site 557722015516 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 557722015517 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 557722015518 molybdopterin cofactor binding site; other site 557722015519 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 557722015520 Lipase (class 2); Region: Lipase_2; pfam01674 557722015521 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 557722015522 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 557722015523 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 557722015524 active site 557722015525 FMN binding site [chemical binding]; other site 557722015526 2,4-decadienoyl-CoA binding site; other site 557722015527 catalytic residue [active] 557722015528 4Fe-4S cluster binding site [ion binding]; other site 557722015529 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 557722015530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722015531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 557722015532 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 557722015533 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 557722015534 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 557722015535 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 557722015536 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 557722015537 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 557722015538 Ligand binding site; other site 557722015539 Putative Catalytic site; other site 557722015540 DXD motif; other site 557722015541 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 557722015542 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 557722015543 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 557722015544 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 557722015545 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 557722015546 PhoU domain; Region: PhoU; pfam01895 557722015547 magnesium-transporting ATPase; Provisional; Region: PRK15122 557722015548 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 557722015549 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557722015550 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 557722015551 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557722015552 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 557722015553 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 557722015554 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 557722015555 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 557722015556 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 557722015557 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722015558 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557722015559 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 557722015560 CoenzymeA binding site [chemical binding]; other site 557722015561 subunit interaction site [polypeptide binding]; other site 557722015562 PHB binding site; other site 557722015563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722015564 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722015565 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557722015566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722015567 NAD(P) binding site [chemical binding]; other site 557722015568 active site 557722015569 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 557722015570 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 557722015571 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557722015572 EamA-like transporter family; Region: EamA; pfam00892 557722015573 EamA-like transporter family; Region: EamA; pfam00892 557722015574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 557722015575 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 557722015576 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722015577 Nicotianamine synthase protein; Region: NAS; cl17658 557722015578 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 557722015579 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 557722015580 N-terminal plug; other site 557722015581 ligand-binding site [chemical binding]; other site 557722015582 Predicted membrane protein [Function unknown]; Region: COG3503 557722015583 arginine decarboxylase; Provisional; Region: PRK05354 557722015584 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 557722015585 dimer interface [polypeptide binding]; other site 557722015586 active site 557722015587 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557722015588 catalytic residues [active] 557722015589 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 557722015590 translation initiation factor Sui1; Validated; Region: PRK06824 557722015591 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 557722015592 putative rRNA binding site [nucleotide binding]; other site 557722015593 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 557722015594 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 557722015595 nudix motif; other site 557722015596 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 557722015597 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 557722015598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722015599 active site 557722015600 phosphorylation site [posttranslational modification] 557722015601 intermolecular recognition site; other site 557722015602 dimerization interface [polypeptide binding]; other site 557722015603 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722015604 metal binding site [ion binding]; metal-binding site 557722015605 active site 557722015606 I-site; other site 557722015607 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722015608 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722015609 dimer interface [polypeptide binding]; other site 557722015610 putative CheW interface [polypeptide binding]; other site 557722015611 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 557722015612 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 557722015613 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 557722015614 DsbD alpha interface [polypeptide binding]; other site 557722015615 catalytic residues [active] 557722015616 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 557722015617 Dehydroquinase class II; Region: DHquinase_II; pfam01220 557722015618 active site 557722015619 trimer interface [polypeptide binding]; other site 557722015620 dimer interface [polypeptide binding]; other site 557722015621 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 557722015622 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 557722015623 carboxyltransferase (CT) interaction site; other site 557722015624 biotinylation site [posttranslational modification]; other site 557722015625 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 557722015626 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722015627 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557722015628 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557722015629 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 557722015630 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722015631 S-adenosylmethionine binding site [chemical binding]; other site 557722015632 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 557722015633 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 557722015634 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 557722015635 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 557722015636 FMN binding site [chemical binding]; other site 557722015637 active site 557722015638 catalytic residues [active] 557722015639 substrate binding site [chemical binding]; other site 557722015640 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 557722015641 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 557722015642 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 557722015643 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 557722015644 purine monophosphate binding site [chemical binding]; other site 557722015645 dimer interface [polypeptide binding]; other site 557722015646 putative catalytic residues [active] 557722015647 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 557722015648 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 557722015649 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 557722015650 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 557722015651 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 557722015652 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 557722015653 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 557722015654 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 557722015655 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 557722015656 dimer interface [polypeptide binding]; other site 557722015657 phosphorylation site [posttranslational modification] 557722015658 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722015659 ATP binding site [chemical binding]; other site 557722015660 Mg2+ binding site [ion binding]; other site 557722015661 G-X-G motif; other site 557722015662 Response regulator receiver domain; Region: Response_reg; pfam00072 557722015663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722015664 active site 557722015665 phosphorylation site [posttranslational modification] 557722015666 intermolecular recognition site; other site 557722015667 dimerization interface [polypeptide binding]; other site 557722015668 Response regulator receiver domain; Region: Response_reg; pfam00072 557722015669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722015670 active site 557722015671 phosphorylation site [posttranslational modification] 557722015672 intermolecular recognition site; other site 557722015673 dimerization interface [polypeptide binding]; other site 557722015674 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 557722015675 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 557722015676 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 557722015677 putative ligand binding site [chemical binding]; other site 557722015678 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 557722015679 TM-ABC transporter signature motif; other site 557722015680 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 557722015681 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557722015682 TM-ABC transporter signature motif; other site 557722015683 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 557722015684 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557722015685 Walker A/P-loop; other site 557722015686 ATP binding site [chemical binding]; other site 557722015687 Q-loop/lid; other site 557722015688 ABC transporter signature motif; other site 557722015689 Walker B; other site 557722015690 D-loop; other site 557722015691 H-loop/switch region; other site 557722015692 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 557722015693 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557722015694 Walker A/P-loop; other site 557722015695 ATP binding site [chemical binding]; other site 557722015696 Q-loop/lid; other site 557722015697 ABC transporter signature motif; other site 557722015698 Walker B; other site 557722015699 D-loop; other site 557722015700 H-loop/switch region; other site 557722015701 putative acetyltransferase; Provisional; Region: PRK03624 557722015702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722015703 Coenzyme A binding pocket [chemical binding]; other site 557722015704 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 557722015705 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 557722015706 alpha-gamma subunit interface [polypeptide binding]; other site 557722015707 beta-gamma subunit interface [polypeptide binding]; other site 557722015708 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 557722015709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722015710 Coenzyme A binding pocket [chemical binding]; other site 557722015711 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 557722015712 gamma-beta subunit interface [polypeptide binding]; other site 557722015713 alpha-beta subunit interface [polypeptide binding]; other site 557722015714 urease subunit alpha; Reviewed; Region: ureC; PRK13207 557722015715 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 557722015716 subunit interactions [polypeptide binding]; other site 557722015717 active site 557722015718 flap region; other site 557722015719 hypothetical protein; Provisional; Region: PRK11019 557722015720 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 557722015721 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 557722015722 tetramer interface [polypeptide binding]; other site 557722015723 active site 557722015724 Mg2+/Mn2+ binding site [ion binding]; other site 557722015725 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 557722015726 putative chaperone; Provisional; Region: PRK11678 557722015727 nucleotide binding site [chemical binding]; other site 557722015728 putative NEF/HSP70 interaction site [polypeptide binding]; other site 557722015729 SBD interface [polypeptide binding]; other site 557722015730 psiF repeat; Region: PsiF_repeat; pfam07769 557722015731 psiF repeat; Region: PsiF_repeat; pfam07769 557722015732 psiF repeat; Region: PsiF_repeat; pfam07769 557722015733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 557722015734 MOSC domain; Region: MOSC; pfam03473 557722015735 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 557722015736 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 557722015737 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 557722015738 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 557722015739 DNA binding residues [nucleotide binding] 557722015740 drug binding residues [chemical binding]; other site 557722015741 dimer interface [polypeptide binding]; other site 557722015742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 557722015743 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 557722015744 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 557722015745 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 557722015746 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 557722015747 dinuclear metal binding motif [ion binding]; other site 557722015748 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 557722015749 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 557722015750 Moco binding site; other site 557722015751 metal coordination site [ion binding]; other site 557722015752 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 557722015753 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 557722015754 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 557722015755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722015756 active site 557722015757 phosphorylation site [posttranslational modification] 557722015758 intermolecular recognition site; other site 557722015759 dimerization interface [polypeptide binding]; other site 557722015760 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 557722015761 DNA binding site [nucleotide binding] 557722015762 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557722015763 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 557722015764 dimerization interface [polypeptide binding]; other site 557722015765 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 557722015766 dimer interface [polypeptide binding]; other site 557722015767 phosphorylation site [posttranslational modification] 557722015768 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722015769 ATP binding site [chemical binding]; other site 557722015770 Mg2+ binding site [ion binding]; other site 557722015771 G-X-G motif; other site 557722015772 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722015773 putative MFS family transporter protein; Provisional; Region: PRK03633 557722015774 putative substrate translocation pore; other site 557722015775 Fatty acid desaturase; Region: FA_desaturase; pfam00487 557722015776 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 557722015777 putative di-iron ligands [ion binding]; other site 557722015778 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 557722015779 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557722015780 FAD binding pocket [chemical binding]; other site 557722015781 FAD binding motif [chemical binding]; other site 557722015782 phosphate binding motif [ion binding]; other site 557722015783 beta-alpha-beta structure motif; other site 557722015784 NAD binding pocket [chemical binding]; other site 557722015785 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 557722015786 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557722015787 catalytic loop [active] 557722015788 iron binding site [ion binding]; other site 557722015789 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 557722015790 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722015791 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 557722015792 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 557722015793 dimer interface [polypeptide binding]; other site 557722015794 catalytic residues [active] 557722015795 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 557722015796 UreF; Region: UreF; pfam01730 557722015797 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 557722015798 G1 box; other site 557722015799 GTP/Mg2+ binding site [chemical binding]; other site 557722015800 G2 box; other site 557722015801 Switch I region; other site 557722015802 G3 box; other site 557722015803 Switch II region; other site 557722015804 G4 box; other site 557722015805 G5 box; other site 557722015806 HupE / UreJ protein; Region: HupE_UreJ; cl01011 557722015807 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 557722015808 FecR protein; Region: FecR; pfam04773 557722015809 RNA polymerase sigma factor; Provisional; Region: PRK12529 557722015810 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557722015811 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 557722015812 DNA binding residues [nucleotide binding] 557722015813 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722015814 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 557722015815 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 557722015816 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 557722015817 outer membrane porin, OprD family; Region: OprD; pfam03573 557722015818 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 557722015819 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557722015820 NAD(P) binding site [chemical binding]; other site 557722015821 catalytic residues [active] 557722015822 benzoate transport; Region: 2A0115; TIGR00895 557722015823 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722015824 putative substrate translocation pore; other site 557722015825 benzoylformate decarboxylase; Reviewed; Region: PRK07092 557722015826 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557722015827 PYR/PP interface [polypeptide binding]; other site 557722015828 dimer interface [polypeptide binding]; other site 557722015829 TPP binding site [chemical binding]; other site 557722015830 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722015831 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 557722015832 TPP-binding site [chemical binding]; other site 557722015833 dimer interface [polypeptide binding]; other site 557722015834 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722015835 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722015836 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 557722015837 substrate binding pocket [chemical binding]; other site 557722015838 dimerization interface [polypeptide binding]; other site 557722015839 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722015840 putative substrate translocation pore; other site 557722015841 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557722015842 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 557722015843 iron-sulfur cluster [ion binding]; other site 557722015844 [2Fe-2S] cluster binding site [ion binding]; other site 557722015845 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 557722015846 alpha subunit interface [polypeptide binding]; other site 557722015847 active site 557722015848 substrate binding site [chemical binding]; other site 557722015849 Fe binding site [ion binding]; other site 557722015850 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557722015851 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 557722015852 FMN-binding pocket [chemical binding]; other site 557722015853 flavin binding motif; other site 557722015854 phosphate binding motif [ion binding]; other site 557722015855 beta-alpha-beta structure motif; other site 557722015856 NAD binding pocket [chemical binding]; other site 557722015857 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 557722015858 catalytic loop [active] 557722015859 iron binding site [ion binding]; other site 557722015860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722015861 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 557722015862 DNA-binding site [nucleotide binding]; DNA binding site 557722015863 FCD domain; Region: FCD; pfam07729 557722015864 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 557722015865 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 557722015866 putative NAD(P) binding site [chemical binding]; other site 557722015867 homodimer interface [polypeptide binding]; other site 557722015868 homotetramer interface [polypeptide binding]; other site 557722015869 active site 557722015870 ornithine cyclodeaminase; Validated; Region: PRK06141 557722015871 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 557722015872 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 557722015873 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 557722015874 Walker A/P-loop; other site 557722015875 ATP binding site [chemical binding]; other site 557722015876 Q-loop/lid; other site 557722015877 ABC transporter signature motif; other site 557722015878 Walker B; other site 557722015879 D-loop; other site 557722015880 H-loop/switch region; other site 557722015881 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 557722015882 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 557722015883 Walker A/P-loop; other site 557722015884 ATP binding site [chemical binding]; other site 557722015885 Q-loop/lid; other site 557722015886 ABC transporter signature motif; other site 557722015887 Walker B; other site 557722015888 D-loop; other site 557722015889 H-loop/switch region; other site 557722015890 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 557722015891 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 557722015892 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 557722015893 TM-ABC transporter signature motif; other site 557722015894 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557722015895 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 557722015896 TM-ABC transporter signature motif; other site 557722015897 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 557722015898 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 557722015899 dimerization interface [polypeptide binding]; other site 557722015900 ligand binding site [chemical binding]; other site 557722015901 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722015902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722015903 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 557722015904 dimerization interface [polypeptide binding]; other site 557722015905 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 557722015906 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 557722015907 dimerization interface [polypeptide binding]; other site 557722015908 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557722015909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722015910 dimer interface [polypeptide binding]; other site 557722015911 putative CheW interface [polypeptide binding]; other site 557722015912 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 557722015913 nudix motif; other site 557722015914 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 557722015915 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 557722015916 active site 557722015917 nucleotide binding site [chemical binding]; other site 557722015918 HIGH motif; other site 557722015919 KMSKS motif; other site 557722015920 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 557722015921 Isochorismatase family; Region: Isochorismatase; pfam00857 557722015922 catalytic triad [active] 557722015923 metal binding site [ion binding]; metal-binding site 557722015924 conserved cis-peptide bond; other site 557722015925 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 557722015926 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 557722015927 active site 557722015928 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 557722015929 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 557722015930 homodimer interface [polypeptide binding]; other site 557722015931 NAD binding pocket [chemical binding]; other site 557722015932 ATP binding pocket [chemical binding]; other site 557722015933 Mg binding site [ion binding]; other site 557722015934 active-site loop [active] 557722015935 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 557722015936 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 557722015937 active site 557722015938 catalytic triad [active] 557722015939 oxyanion hole [active] 557722015940 Azurin [Energy production and conversion]; Region: COG3241 557722015941 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 557722015942 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722015943 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722015944 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557722015945 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722015946 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557722015947 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 557722015948 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 557722015949 Uncharacterized conserved protein [Function unknown]; Region: COG2308 557722015950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 557722015951 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 557722015952 hypothetical protein; Provisional; Region: PRK01254 557722015953 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 557722015954 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 557722015955 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 557722015956 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 557722015957 active site 557722015958 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557722015959 substrate binding site [chemical binding]; other site 557722015960 catalytic residues [active] 557722015961 dimer interface [polypeptide binding]; other site 557722015962 replicative DNA helicase; Provisional; Region: PRK05748 557722015963 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 557722015964 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 557722015965 Walker A motif; other site 557722015966 ATP binding site [chemical binding]; other site 557722015967 Walker B motif; other site 557722015968 DNA binding loops [nucleotide binding] 557722015969 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 557722015970 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 557722015971 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 557722015972 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 557722015973 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 557722015974 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 557722015975 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 557722015976 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557722015977 exoribonuclease R; Provisional; Region: PRK11642 557722015978 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 557722015979 RNB domain; Region: RNB; pfam00773 557722015980 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 557722015981 RNA binding site [nucleotide binding]; other site 557722015982 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 557722015983 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 557722015984 GDP-binding site [chemical binding]; other site 557722015985 ACT binding site; other site 557722015986 IMP binding site; other site 557722015987 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 557722015988 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 557722015989 dimer interface [polypeptide binding]; other site 557722015990 motif 1; other site 557722015991 active site 557722015992 motif 2; other site 557722015993 motif 3; other site 557722015994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 557722015995 FtsH protease regulator HflC; Provisional; Region: PRK11029 557722015996 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 557722015997 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 557722015998 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 557722015999 HflK protein; Region: hflK; TIGR01933 557722016000 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 557722016001 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 557722016002 HflX GTPase family; Region: HflX; cd01878 557722016003 G1 box; other site 557722016004 GTP/Mg2+ binding site [chemical binding]; other site 557722016005 Switch I region; other site 557722016006 G2 box; other site 557722016007 G3 box; other site 557722016008 Switch II region; other site 557722016009 G4 box; other site 557722016010 G5 box; other site 557722016011 bacterial Hfq-like; Region: Hfq; cd01716 557722016012 hexamer interface [polypeptide binding]; other site 557722016013 Sm1 motif; other site 557722016014 RNA binding site [nucleotide binding]; other site 557722016015 Sm2 motif; other site 557722016016 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 557722016017 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 557722016018 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 557722016019 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722016020 ATP binding site [chemical binding]; other site 557722016021 Mg2+ binding site [ion binding]; other site 557722016022 G-X-G motif; other site 557722016023 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 557722016024 ATP binding site [chemical binding]; other site 557722016025 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 557722016026 AMIN domain; Region: AMIN; pfam11741 557722016027 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 557722016028 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 557722016029 active site 557722016030 metal binding site [ion binding]; metal-binding site 557722016031 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557722016032 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722016033 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 557722016034 putative carbohydrate kinase; Provisional; Region: PRK10565 557722016035 Uncharacterized conserved protein [Function unknown]; Region: COG0062 557722016036 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 557722016037 putative substrate binding site [chemical binding]; other site 557722016038 putative ATP binding site [chemical binding]; other site 557722016039 epoxyqueuosine reductase; Region: TIGR00276 557722016040 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 557722016041 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 557722016042 catalytic site [active] 557722016043 putative active site [active] 557722016044 putative substrate binding site [chemical binding]; other site 557722016045 dimer interface [polypeptide binding]; other site 557722016046 GTPase RsgA; Reviewed; Region: PRK12288 557722016047 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 557722016048 RNA binding site [nucleotide binding]; other site 557722016049 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 557722016050 GTPase/Zn-binding domain interface [polypeptide binding]; other site 557722016051 GTP/Mg2+ binding site [chemical binding]; other site 557722016052 G4 box; other site 557722016053 G5 box; other site 557722016054 G1 box; other site 557722016055 Switch I region; other site 557722016056 G2 box; other site 557722016057 G3 box; other site 557722016058 Switch II region; other site 557722016059 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 557722016060 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 557722016061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557722016062 ligand binding site [chemical binding]; other site 557722016063 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 557722016064 flagellar motor protein MotA; Validated; Region: PRK09110 557722016065 HDOD domain; Region: HDOD; pfam08668 557722016066 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 557722016067 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 557722016068 active site residue [active] 557722016069 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 557722016070 active site residue [active] 557722016071 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 557722016072 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 557722016073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 557722016074 active site 557722016075 phosphorylation site [posttranslational modification] 557722016076 dimerization interface [polypeptide binding]; other site 557722016077 PAS fold; Region: PAS; pfam00989 557722016078 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 557722016079 putative active site [active] 557722016080 heme pocket [chemical binding]; other site 557722016081 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722016082 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722016083 metal binding site [ion binding]; metal-binding site 557722016084 active site 557722016085 I-site; other site 557722016086 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 557722016087 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 557722016088 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 557722016089 phosphoserine phosphatase SerB; Region: serB; TIGR00338 557722016090 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 557722016091 motif II; other site 557722016092 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 557722016093 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 557722016094 metal binding site [ion binding]; metal-binding site 557722016095 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 557722016096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 557722016097 Protein of unknown function (DUF330); Region: DUF330; pfam03886 557722016098 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 557722016099 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 557722016100 CAP-like domain; other site 557722016101 active site 557722016102 primary dimer interface [polypeptide binding]; other site 557722016103 Predicted aspartyl protease [General function prediction only]; Region: COG3577 557722016104 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 557722016105 catalytic motif [active] 557722016106 Catalytic residue [active] 557722016107 SdiA-regulated; Region: SdiA-regulated; cd09971 557722016108 putative active site [active] 557722016109 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 557722016110 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722016111 ATP binding site [chemical binding]; other site 557722016112 Mg2+ binding site [ion binding]; other site 557722016113 G-X-G motif; other site 557722016114 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 557722016115 anchoring element; other site 557722016116 dimer interface [polypeptide binding]; other site 557722016117 ATP binding site [chemical binding]; other site 557722016118 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 557722016119 active site 557722016120 metal binding site [ion binding]; metal-binding site 557722016121 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557722016122 Predicted esterase [General function prediction only]; Region: COG3150 557722016123 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557722016124 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 557722016125 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557722016126 active site 557722016127 metal binding site [ion binding]; metal-binding site 557722016128 hexamer interface [polypeptide binding]; other site 557722016129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3151 557722016130 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 557722016131 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 557722016132 dimer interface [polypeptide binding]; other site 557722016133 ADP-ribose binding site [chemical binding]; other site 557722016134 active site 557722016135 nudix motif; other site 557722016136 metal binding site [ion binding]; metal-binding site 557722016137 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 557722016138 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 557722016139 ThiC-associated domain; Region: ThiC-associated; pfam13667 557722016140 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 557722016141 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 557722016142 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 557722016143 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557722016144 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 557722016145 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 557722016146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722016147 homodimer interface [polypeptide binding]; other site 557722016148 catalytic residue [active] 557722016149 hypothetical protein; Provisional; Region: PRK07524 557722016150 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557722016151 PYR/PP interface [polypeptide binding]; other site 557722016152 dimer interface [polypeptide binding]; other site 557722016153 TPP binding site [chemical binding]; other site 557722016154 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722016155 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 557722016156 TPP-binding site [chemical binding]; other site 557722016157 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 557722016158 CoA binding domain; Region: CoA_binding_2; pfam13380 557722016159 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 557722016160 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 557722016161 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722016162 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722016163 active site 557722016164 enoyl-CoA hydratase; Provisional; Region: PRK06688 557722016165 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 557722016166 substrate binding site [chemical binding]; other site 557722016167 oxyanion hole (OAH) forming residues; other site 557722016168 trimer interface [polypeptide binding]; other site 557722016169 S-methylmethionine transporter; Provisional; Region: PRK11387 557722016170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557722016171 HAMP domain; Region: HAMP; pfam00672 557722016172 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 557722016173 dimer interface [polypeptide binding]; other site 557722016174 phosphorylation site [posttranslational modification] 557722016175 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722016176 ATP binding site [chemical binding]; other site 557722016177 Mg2+ binding site [ion binding]; other site 557722016178 G-X-G motif; other site 557722016179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722016180 Response regulator receiver domain; Region: Response_reg; pfam00072 557722016181 active site 557722016182 phosphorylation site [posttranslational modification] 557722016183 intermolecular recognition site; other site 557722016184 dimerization interface [polypeptide binding]; other site 557722016185 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 557722016186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722016187 active site 557722016188 phosphorylation site [posttranslational modification] 557722016189 intermolecular recognition site; other site 557722016190 dimerization interface [polypeptide binding]; other site 557722016191 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 557722016192 DNA binding site [nucleotide binding] 557722016193 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 557722016194 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722016195 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 557722016196 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557722016197 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557722016198 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 557722016199 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 557722016200 putative active site [active] 557722016201 putative FMN binding site [chemical binding]; other site 557722016202 putative substrate binding site [chemical binding]; other site 557722016203 putative catalytic residue [active] 557722016204 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 557722016205 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 557722016206 non-specific DNA binding site [nucleotide binding]; other site 557722016207 salt bridge; other site 557722016208 sequence-specific DNA binding site [nucleotide binding]; other site 557722016209 Cupin domain; Region: Cupin_2; pfam07883 557722016210 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 557722016211 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 557722016212 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 557722016213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722016214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722016215 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 557722016216 dimerization interface [polypeptide binding]; other site 557722016217 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 557722016218 FAD dependent oxidoreductase; Region: DAO; pfam01266 557722016219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722016220 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 557722016221 active site 557722016222 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557722016223 catalytic tetrad [active] 557722016224 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722016225 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722016226 active site 557722016227 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557722016228 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722016229 active site 557722016230 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 557722016231 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 557722016232 dimer interface [polypeptide binding]; other site 557722016233 active site 557722016234 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 557722016235 Ligand Binding Site [chemical binding]; other site 557722016236 Molecular Tunnel; other site 557722016237 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 557722016238 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 557722016239 putative ribose interaction site [chemical binding]; other site 557722016240 putative ADP binding site [chemical binding]; other site 557722016241 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 557722016242 active site 557722016243 nucleotide binding site [chemical binding]; other site 557722016244 HIGH motif; other site 557722016245 KMSKS motif; other site 557722016246 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 557722016247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557722016248 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 557722016249 Walker A/P-loop; other site 557722016250 ATP binding site [chemical binding]; other site 557722016251 Q-loop/lid; other site 557722016252 ABC transporter signature motif; other site 557722016253 Walker B; other site 557722016254 D-loop; other site 557722016255 H-loop/switch region; other site 557722016256 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 557722016257 active site 557722016258 substrate binding site [chemical binding]; other site 557722016259 ATP binding site [chemical binding]; other site 557722016260 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 557722016261 O-Antigen ligase; Region: Wzy_C; pfam04932 557722016262 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557722016263 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 557722016264 active site 557722016265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722016266 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 557722016267 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 557722016268 Mig-14; Region: Mig-14; pfam07395 557722016269 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 557722016270 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 557722016271 putative ADP-binding pocket [chemical binding]; other site 557722016272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722016273 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 557722016274 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 557722016275 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 557722016276 active site 557722016277 ATP binding site [chemical binding]; other site 557722016278 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 557722016279 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 557722016280 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 557722016281 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 557722016282 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722016283 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 557722016284 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 557722016285 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 557722016286 putative active site [active] 557722016287 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 557722016288 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 557722016289 putative active site [active] 557722016290 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 557722016291 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 557722016292 homodimer interface [polypeptide binding]; other site 557722016293 substrate-cofactor binding pocket; other site 557722016294 catalytic residue [active] 557722016295 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 557722016296 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557722016297 metal binding triad; other site 557722016298 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557722016299 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557722016300 metal binding triad; other site 557722016301 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557722016302 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 557722016303 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 557722016304 dimer interface [polypeptide binding]; other site 557722016305 TPP-binding site [chemical binding]; other site 557722016306 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 557722016307 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_long; TIGR01348 557722016308 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 557722016309 E3 interaction surface; other site 557722016310 lipoyl attachment site [posttranslational modification]; other site 557722016311 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 557722016312 E3 interaction surface; other site 557722016313 lipoyl attachment site [posttranslational modification]; other site 557722016314 e3 binding domain; Region: E3_binding; pfam02817 557722016315 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557722016316 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 557722016317 GAF domain; Region: GAF; pfam01590 557722016318 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 557722016319 PAS domain; Region: PAS_9; pfam13426 557722016320 putative active site [active] 557722016321 heme pocket [chemical binding]; other site 557722016322 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722016323 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722016324 metal binding site [ion binding]; metal-binding site 557722016325 active site 557722016326 I-site; other site 557722016327 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 557722016328 methionine sulfoxide reductase A; Provisional; Region: PRK00058 557722016329 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 557722016330 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557722016331 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557722016332 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722016333 active site 557722016334 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557722016335 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 557722016336 TrkA-C domain; Region: TrkA_C; pfam02080 557722016337 Transporter associated domain; Region: CorC_HlyC; smart01091 557722016338 hypothetical protein; Provisional; Region: PRK11281 557722016339 Vegetative insecticide protein 3A N terminal; Region: Vip3A_N; pfam12495 557722016340 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 557722016341 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722016342 Uncharacterized conserved protein [Function unknown]; Region: COG0397 557722016343 hypothetical protein; Validated; Region: PRK00029 557722016344 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557722016345 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 557722016346 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 557722016347 homodimer interface [polypeptide binding]; other site 557722016348 substrate-cofactor binding pocket; other site 557722016349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722016350 catalytic residue [active] 557722016351 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 557722016352 CoenzymeA binding site [chemical binding]; other site 557722016353 subunit interaction site [polypeptide binding]; other site 557722016354 PHB binding site; other site 557722016355 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 557722016356 Ligand Binding Site [chemical binding]; other site 557722016357 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 557722016358 Ligand Binding Site [chemical binding]; other site 557722016359 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557722016360 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 557722016361 P-loop; other site 557722016362 Magnesium ion binding site [ion binding]; other site 557722016363 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 557722016364 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557722016365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722016366 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 557722016367 dimerization interface [polypeptide binding]; other site 557722016368 substrate binding pocket [chemical binding]; other site 557722016369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722016370 putative substrate translocation pore; other site 557722016371 short chain dehydrogenase; Provisional; Region: PRK06197 557722016372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722016373 NAD(P) binding site [chemical binding]; other site 557722016374 active site 557722016375 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722016376 Helix-turn-helix domain; Region: HTH_18; pfam12833 557722016377 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722016378 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 557722016379 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 557722016380 substrate binding site [chemical binding]; other site 557722016381 active site 557722016382 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 557722016383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722016384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722016385 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 557722016386 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 557722016387 active site 557722016388 dimer interface [polypeptide binding]; other site 557722016389 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 557722016390 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 557722016391 active site 557722016392 FMN binding site [chemical binding]; other site 557722016393 substrate binding site [chemical binding]; other site 557722016394 3Fe-4S cluster binding site [ion binding]; other site 557722016395 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 557722016396 domain interface; other site 557722016397 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 557722016398 AAA ATPase domain; Region: AAA_16; pfam13191 557722016399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 557722016400 Sporulation related domain; Region: SPOR; pfam05036 557722016401 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 557722016402 active site 557722016403 dimer interface [polypeptide binding]; other site 557722016404 metal binding site [ion binding]; metal-binding site 557722016405 shikimate kinase; Reviewed; Region: aroK; PRK00131 557722016406 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 557722016407 ADP binding site [chemical binding]; other site 557722016408 magnesium binding site [ion binding]; other site 557722016409 putative shikimate binding site; other site 557722016410 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 557722016411 AMIN domain; Region: AMIN; pfam11741 557722016412 Secretin and TonB N terminus short domain; Region: STN; smart00965 557722016413 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557722016414 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557722016415 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 557722016416 Pilus assembly protein, PilP; Region: PilP; pfam04351 557722016417 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 557722016418 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 557722016419 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 557722016420 Competence protein A; Region: Competence_A; pfam11104 557722016421 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557722016422 nucleotide binding site [chemical binding]; other site 557722016423 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 557722016424 Transglycosylase; Region: Transgly; pfam00912 557722016425 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 557722016426 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 557722016427 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557722016428 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 557722016429 putative NAD(P) binding site [chemical binding]; other site 557722016430 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 557722016431 Peptidase family M48; Region: Peptidase_M48; pfam01435 557722016432 Staphylococcal nuclease homologues; Region: SNc; smart00318 557722016433 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 557722016434 Catalytic site; other site 557722016435 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 557722016436 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 557722016437 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 557722016438 ATP binding site [chemical binding]; other site 557722016439 putative Mg++ binding site [ion binding]; other site 557722016440 helicase superfamily c-terminal domain; Region: HELICc; smart00490 557722016441 nucleotide binding region [chemical binding]; other site 557722016442 ATP-binding site [chemical binding]; other site 557722016443 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 557722016444 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 557722016445 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 557722016446 active site 557722016447 HIGH motif; other site 557722016448 KMSK motif region; other site 557722016449 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557722016450 tRNA binding surface [nucleotide binding]; other site 557722016451 anticodon binding site; other site 557722016452 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 557722016453 Sporulation related domain; Region: SPOR; pfam05036 557722016454 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 557722016455 active site 557722016456 HslU subunit interaction site [polypeptide binding]; other site 557722016457 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 557722016458 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722016459 Walker A motif; other site 557722016460 ATP binding site [chemical binding]; other site 557722016461 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 557722016462 Walker B motif; other site 557722016463 arginine finger; other site 557722016464 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 557722016465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 557722016466 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 557722016467 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 557722016468 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 557722016469 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 557722016470 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 557722016471 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 557722016472 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557722016473 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722016474 Bacterial transcriptional repressor; Region: TetR; pfam13972 557722016475 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 557722016476 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 557722016477 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 557722016478 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 557722016479 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722016480 S-adenosylmethionine binding site [chemical binding]; other site 557722016481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 557722016482 SCP-2 sterol transfer family; Region: SCP2; pfam02036 557722016483 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 557722016484 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 557722016485 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 557722016486 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 557722016487 metal binding site [ion binding]; metal-binding site 557722016488 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 557722016489 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 557722016490 sec-independent translocase; Provisional; Region: tatB; PRK00404 557722016491 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 557722016492 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 557722016493 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 557722016494 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 557722016495 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557722016496 dimer interface [polypeptide binding]; other site 557722016497 putative CheW interface [polypeptide binding]; other site 557722016498 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 557722016499 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557722016500 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557722016501 Walker A/P-loop; other site 557722016502 ATP binding site [chemical binding]; other site 557722016503 Q-loop/lid; other site 557722016504 ABC transporter signature motif; other site 557722016505 Walker B; other site 557722016506 D-loop; other site 557722016507 H-loop/switch region; other site 557722016508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722016509 dimer interface [polypeptide binding]; other site 557722016510 conserved gate region; other site 557722016511 putative PBP binding loops; other site 557722016512 ABC-ATPase subunit interface; other site 557722016513 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722016514 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 557722016515 substrate binding pocket [chemical binding]; other site 557722016516 membrane-bound complex binding site; other site 557722016517 hinge residues; other site 557722016518 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557722016519 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 557722016520 Ligand binding site; other site 557722016521 DXD motif; other site 557722016522 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 557722016523 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 557722016524 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 557722016525 putative active site [active] 557722016526 dimerization interface [polypeptide binding]; other site 557722016527 putative tRNAtyr binding site [nucleotide binding]; other site 557722016528 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 557722016529 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 557722016530 TAP-like protein; Region: Abhydrolase_4; pfam08386 557722016531 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 557722016532 nudix motif; other site 557722016533 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722016534 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 557722016535 substrate binding pocket [chemical binding]; other site 557722016536 membrane-bound complex binding site; other site 557722016537 hinge residues; other site 557722016538 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 557722016539 homotrimer interaction site [polypeptide binding]; other site 557722016540 putative active site [active] 557722016541 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 557722016542 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557722016543 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722016544 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 557722016545 dimerization interface [polypeptide binding]; other site 557722016546 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722016547 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722016548 Sel1 repeat; Region: Sel1; cl02723 557722016549 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557722016550 Sel1 repeat; Region: Sel1; cl02723 557722016551 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557722016552 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 557722016553 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557722016554 putative active site [active] 557722016555 catalytic site [active] 557722016556 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557722016557 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557722016558 putative active site [active] 557722016559 catalytic site [active] 557722016560 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557722016561 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722016562 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722016563 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557722016564 N-formylglutamate amidohydrolase; Region: FGase; cl01522 557722016565 imidazolonepropionase; Validated; Region: PRK09356 557722016566 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 557722016567 active site 557722016568 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 557722016569 active sites [active] 557722016570 tetramer interface [polypeptide binding]; other site 557722016571 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557722016572 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 557722016573 Walker A/P-loop; other site 557722016574 ATP binding site [chemical binding]; other site 557722016575 Q-loop/lid; other site 557722016576 ABC transporter signature motif; other site 557722016577 Walker B; other site 557722016578 D-loop; other site 557722016579 H-loop/switch region; other site 557722016580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722016581 dimer interface [polypeptide binding]; other site 557722016582 conserved gate region; other site 557722016583 putative PBP binding loops; other site 557722016584 ABC-ATPase subunit interface; other site 557722016585 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557722016586 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 557722016587 putative proline-specific permease; Provisional; Region: proY; PRK10580 557722016588 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 557722016589 active sites [active] 557722016590 tetramer interface [polypeptide binding]; other site 557722016591 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 557722016592 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557722016593 Na binding site [ion binding]; other site 557722016594 urocanate hydratase; Provisional; Region: PRK05414 557722016595 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 557722016596 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 557722016597 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 557722016598 putative di-iron ligands [ion binding]; other site 557722016599 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557722016600 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 557722016601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 557722016602 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 557722016603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722016604 DNA-binding site [nucleotide binding]; DNA binding site 557722016605 UTRA domain; Region: UTRA; pfam07702 557722016606 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 557722016607 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 557722016608 active site 557722016609 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 557722016610 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 557722016611 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 557722016612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 557722016613 fructose-1,6-bisphosphatase family protein; Region: PLN02628 557722016614 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 557722016615 AMP binding site [chemical binding]; other site 557722016616 metal binding site [ion binding]; metal-binding site 557722016617 active site 557722016618 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 557722016619 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557722016620 dimer interface [polypeptide binding]; other site 557722016621 active site 557722016622 metal binding site [ion binding]; metal-binding site 557722016623 glutathione binding site [chemical binding]; other site 557722016624 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 557722016625 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 557722016626 active site 557722016627 catalytic triad [active] 557722016628 oxyanion hole [active] 557722016629 Autotransporter beta-domain; Region: Autotransporter; pfam03797 557722016630 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 557722016631 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 557722016632 Predicted membrane protein [Function unknown]; Region: COG5373 557722016633 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722016634 S-adenosylmethionine binding site [chemical binding]; other site 557722016635 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 557722016636 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557722016637 DNA binding residues [nucleotide binding] 557722016638 putative dimer interface [polypeptide binding]; other site 557722016639 putative metal binding residues [ion binding]; other site 557722016640 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 557722016641 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 557722016642 G1 box; other site 557722016643 putative GEF interaction site [polypeptide binding]; other site 557722016644 GTP/Mg2+ binding site [chemical binding]; other site 557722016645 Switch I region; other site 557722016646 G2 box; other site 557722016647 G3 box; other site 557722016648 Switch II region; other site 557722016649 G4 box; other site 557722016650 G5 box; other site 557722016651 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 557722016652 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 557722016653 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 557722016654 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 557722016655 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 557722016656 Ligand Binding Site [chemical binding]; other site 557722016657 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 557722016658 glutamine synthetase; Provisional; Region: glnA; PRK09469 557722016659 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557722016660 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722016661 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557722016662 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722016663 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 557722016664 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 557722016665 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 557722016666 PAS domain; Region: PAS; smart00091 557722016667 putative active site [active] 557722016668 heme pocket [chemical binding]; other site 557722016669 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 557722016670 dimer interface [polypeptide binding]; other site 557722016671 phosphorylation site [posttranslational modification] 557722016672 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722016673 ATP binding site [chemical binding]; other site 557722016674 Mg2+ binding site [ion binding]; other site 557722016675 G-X-G motif; other site 557722016676 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 557722016677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722016678 active site 557722016679 phosphorylation site [posttranslational modification] 557722016680 intermolecular recognition site; other site 557722016681 dimerization interface [polypeptide binding]; other site 557722016682 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722016683 Walker A motif; other site 557722016684 ATP binding site [chemical binding]; other site 557722016685 Walker B motif; other site 557722016686 arginine finger; other site 557722016687 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722016688 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 557722016689 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 557722016690 SecA binding site; other site 557722016691 Preprotein binding site; other site 557722016692 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 557722016693 GSH binding site [chemical binding]; other site 557722016694 catalytic residues [active] 557722016695 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 557722016696 active site residue [active] 557722016697 phosphoglyceromutase; Provisional; Region: PRK05434 557722016698 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 557722016699 CAAX protease self-immunity; Region: Abi; pfam02517 557722016700 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 557722016701 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722016702 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 557722016703 C-terminal peptidase (prc); Region: prc; TIGR00225 557722016704 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 557722016705 protein binding site [polypeptide binding]; other site 557722016706 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 557722016707 Catalytic dyad [active] 557722016708 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 557722016709 NodB motif; other site 557722016710 putative active site [active] 557722016711 putative catalytic site [active] 557722016712 Zn binding site [ion binding]; other site 557722016713 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 557722016714 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 557722016715 substrate binding pocket [chemical binding]; other site 557722016716 membrane-bound complex binding site; other site 557722016717 hinge residues; other site 557722016718 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 557722016719 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722016720 substrate binding pocket [chemical binding]; other site 557722016721 membrane-bound complex binding site; other site 557722016722 hinge residues; other site 557722016723 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 557722016724 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722016725 substrate binding pocket [chemical binding]; other site 557722016726 membrane-bound complex binding site; other site 557722016727 hinge residues; other site 557722016728 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 557722016729 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 557722016730 substrate binding site [chemical binding]; other site 557722016731 glutamase interaction surface [polypeptide binding]; other site 557722016732 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 557722016733 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 557722016734 catalytic residues [active] 557722016735 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 557722016736 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 557722016737 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 557722016738 putative active site [active] 557722016739 oxyanion strand; other site 557722016740 catalytic triad [active] 557722016741 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 557722016742 putative active site pocket [active] 557722016743 4-fold oligomerization interface [polypeptide binding]; other site 557722016744 metal binding residues [ion binding]; metal-binding site 557722016745 3-fold/trimer interface [polypeptide binding]; other site 557722016746 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 557722016747 Predicted dehydrogenase [General function prediction only]; Region: COG0579 557722016748 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557722016749 AsmA family; Region: AsmA; pfam05170 557722016750 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 557722016751 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 557722016752 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 557722016753 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557722016754 minor groove reading motif; other site 557722016755 helix-hairpin-helix signature motif; other site 557722016756 substrate binding pocket [chemical binding]; other site 557722016757 active site 557722016758 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 557722016759 DNA binding and oxoG recognition site [nucleotide binding] 557722016760 oxidative damage protection protein; Provisional; Region: PRK05408 557722016761 putative oxidoreductase; Provisional; Region: PRK11579 557722016762 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557722016763 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 557722016764 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557722016765 classical (c) SDRs; Region: SDR_c; cd05233 557722016766 NAD(P) binding site [chemical binding]; other site 557722016767 active site 557722016768 Uncharacterized conserved protein [Function unknown]; Region: COG2928 557722016769 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 557722016770 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557722016771 Walker A/P-loop; other site 557722016772 ATP binding site [chemical binding]; other site 557722016773 Q-loop/lid; other site 557722016774 ABC transporter signature motif; other site 557722016775 Walker B; other site 557722016776 D-loop; other site 557722016777 H-loop/switch region; other site 557722016778 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557722016779 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 557722016780 substrate binding pocket [chemical binding]; other site 557722016781 membrane-bound complex binding site; other site 557722016782 hinge residues; other site 557722016783 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722016784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722016785 dimer interface [polypeptide binding]; other site 557722016786 conserved gate region; other site 557722016787 putative PBP binding loops; other site 557722016788 ABC-ATPase subunit interface; other site 557722016789 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557722016790 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722016791 dimer interface [polypeptide binding]; other site 557722016792 conserved gate region; other site 557722016793 putative PBP binding loops; other site 557722016794 ABC-ATPase subunit interface; other site 557722016795 Methyltransferase domain; Region: Methyltransf_32; pfam13679 557722016796 MarR family; Region: MarR_2; cl17246 557722016797 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557722016798 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557722016799 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 557722016800 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557722016801 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722016802 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557722016803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722016804 putative substrate translocation pore; other site 557722016805 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722016806 potential protein location (hypothetical protein PLES_55521 [Pseudomonas aeruginosa LESB58]) that overlaps RNA (tRNA-T) 557722016807 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 557722016808 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 557722016809 NAD binding site [chemical binding]; other site 557722016810 substrate binding site [chemical binding]; other site 557722016811 homodimer interface [polypeptide binding]; other site 557722016812 active site 557722016813 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 557722016814 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 557722016815 NADP binding site [chemical binding]; other site 557722016816 active site 557722016817 putative substrate binding site [chemical binding]; other site 557722016818 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 557722016819 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 557722016820 substrate binding site; other site 557722016821 tetramer interface; other site 557722016822 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 557722016823 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 557722016824 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 557722016825 dimer interface [polypeptide binding]; other site 557722016826 phosphorylation site [posttranslational modification] 557722016827 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722016828 ATP binding site [chemical binding]; other site 557722016829 Mg2+ binding site [ion binding]; other site 557722016830 G-X-G motif; other site 557722016831 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722016832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722016833 active site 557722016834 phosphorylation site [posttranslational modification] 557722016835 intermolecular recognition site; other site 557722016836 dimerization interface [polypeptide binding]; other site 557722016837 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722016838 Walker A motif; other site 557722016839 ATP binding site [chemical binding]; other site 557722016840 Walker B motif; other site 557722016841 arginine finger; other site 557722016842 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722016843 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557722016844 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 557722016845 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 557722016846 DctM-like transporters; Region: DctM; pfam06808 557722016847 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 557722016848 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557722016849 arginine deiminase; Provisional; Region: PRK01388 557722016850 ornithine carbamoyltransferase; Validated; Region: PRK02102 557722016851 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557722016852 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557722016853 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 557722016854 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 557722016855 putative substrate binding site [chemical binding]; other site 557722016856 nucleotide binding site [chemical binding]; other site 557722016857 nucleotide binding site [chemical binding]; other site 557722016858 homodimer interface [polypeptide binding]; other site 557722016859 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 557722016860 "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 557722016861 active site 557722016862 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557722016863 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 557722016864 active site 557722016865 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 557722016866 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 557722016867 dimer interface [polypeptide binding]; other site 557722016868 ADP-ribose binding site [chemical binding]; other site 557722016869 active site 557722016870 nudix motif; other site 557722016871 metal binding site [ion binding]; metal-binding site 557722016872 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 557722016873 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 557722016874 motif II; other site 557722016875 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 557722016876 BON domain; Region: BON; pfam04972 557722016877 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557722016878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722016879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722016880 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 557722016881 dimerization interface [polypeptide binding]; other site 557722016882 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 557722016883 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 557722016884 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 557722016885 putative molybdopterin cofactor binding site [chemical binding]; other site 557722016886 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 557722016887 putative molybdopterin cofactor binding site; other site 557722016888 Global regulator protein family; Region: CsrA; pfam02599 557722016889 chorismate mutase; Provisional; Region: PRK09269 557722016890 Chorismate mutase type II; Region: CM_2; cl00693 557722016891 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 557722016892 active site 557722016893 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557722016894 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 557722016895 active site 557722016896 NAD binding site [chemical binding]; other site 557722016897 metal binding site [ion binding]; metal-binding site 557722016898 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557722016899 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557722016900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557722016901 active site 557722016902 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557722016903 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 557722016904 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557722016905 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557722016906 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557722016907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722016908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722016909 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 557722016910 dimerization interface [polypeptide binding]; other site 557722016911 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 557722016912 dimer interface [polypeptide binding]; other site 557722016913 FMN binding site [chemical binding]; other site 557722016914 Fimbrial protein; Region: Fimbrial; cl01416 557722016915 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 557722016916 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 557722016917 active site 557722016918 substrate-binding site [chemical binding]; other site 557722016919 metal-binding site [ion binding] 557722016920 ATP binding site [chemical binding]; other site 557722016921 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 557722016922 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 557722016923 dimerization interface [polypeptide binding]; other site 557722016924 domain crossover interface; other site 557722016925 redox-dependent activation switch; other site 557722016926 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557722016927 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 557722016928 active site 557722016929 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 557722016930 RNA binding surface [nucleotide binding]; other site 557722016931 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 557722016932 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 557722016933 RimK-like ATP-grasp domain; Region: RimK; pfam08443 557722016934 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 557722016935 dimer interface [polypeptide binding]; other site 557722016936 catalytic triad [active] 557722016937 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 557722016938 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 557722016939 dimerization interface [polypeptide binding]; other site 557722016940 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722016941 ATP binding site [chemical binding]; other site 557722016942 Mg2+ binding site [ion binding]; other site 557722016943 G-X-G motif; other site 557722016944 osmolarity response regulator; Provisional; Region: ompR; PRK09468 557722016945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722016946 active site 557722016947 phosphorylation site [posttranslational modification] 557722016948 intermolecular recognition site; other site 557722016949 dimerization interface [polypeptide binding]; other site 557722016950 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 557722016951 DNA binding site [nucleotide binding] 557722016952 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 557722016953 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 557722016954 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 557722016955 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 557722016956 RNA binding site [nucleotide binding]; other site 557722016957 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 557722016958 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 557722016959 CoenzymeA binding site [chemical binding]; other site 557722016960 subunit interaction site [polypeptide binding]; other site 557722016961 PHB binding site; other site 557722016962 glutamate--cysteine ligase; Provisional; Region: PRK02107 557722016963 N-acetylglutamate synthase; Validated; Region: PRK05279 557722016964 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 557722016965 putative feedback inhibition sensing region; other site 557722016966 putative nucleotide binding site [chemical binding]; other site 557722016967 putative substrate binding site [chemical binding]; other site 557722016968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557722016969 Coenzyme A binding pocket [chemical binding]; other site 557722016970 inner membrane protein; Provisional; Region: PRK10995 557722016971 acetylornithine deacetylase; Provisional; Region: PRK05111 557722016972 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 557722016973 metal binding site [ion binding]; metal-binding site 557722016974 putative dimer interface [polypeptide binding]; other site 557722016975 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557722016976 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557722016977 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 557722016978 Uncharacterized conserved protein [Function unknown]; Region: COG3025 557722016979 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 557722016980 putative active site [active] 557722016981 putative metal binding residues [ion binding]; other site 557722016982 signature motif; other site 557722016983 putative triphosphate binding site [ion binding]; other site 557722016984 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 557722016985 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 557722016986 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 557722016987 Walker A motif; other site 557722016988 ATP binding site [chemical binding]; other site 557722016989 Walker B motif; other site 557722016990 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 557722016991 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 557722016992 glycine dehydrogenase; Provisional; Region: PRK12566 557722016993 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 557722016994 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557722016995 catalytic residue [active] 557722016996 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 557722016997 tetramer interface [polypeptide binding]; other site 557722016998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722016999 catalytic residue [active] 557722017000 glycine cleavage system protein H; Provisional; Region: PRK13380 557722017001 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 557722017002 lipoyl attachment site [posttranslational modification]; other site 557722017003 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 557722017004 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 557722017005 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557722017006 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722017007 dimer interface [polypeptide binding]; other site 557722017008 conserved gate region; other site 557722017009 putative PBP binding loops; other site 557722017010 ABC-ATPase subunit interface; other site 557722017011 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557722017012 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557722017013 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557722017014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722017015 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 557722017016 dimerization interface [polypeptide binding]; other site 557722017017 substrate binding pocket [chemical binding]; other site 557722017018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722017019 putative substrate translocation pore; other site 557722017020 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722017021 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 557722017022 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557722017023 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 557722017024 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 557722017025 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 557722017026 proline aminopeptidase P II; Provisional; Region: PRK10879 557722017027 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 557722017028 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 557722017029 active site 557722017030 hypothetical protein; Reviewed; Region: PRK02166 557722017031 TIGR02449 family protein; Region: TIGR02449 557722017032 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 557722017033 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 557722017034 Uncharacterized conserved protein [Function unknown]; Region: COG2947 557722017035 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557722017036 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 557722017037 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557722017038 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557722017039 Walker A/P-loop; other site 557722017040 ATP binding site [chemical binding]; other site 557722017041 Q-loop/lid; other site 557722017042 ABC transporter signature motif; other site 557722017043 Walker B; other site 557722017044 D-loop; other site 557722017045 H-loop/switch region; other site 557722017046 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557722017047 Walker A/P-loop; other site 557722017048 ATP binding site [chemical binding]; other site 557722017049 Q-loop/lid; other site 557722017050 ABC transporter signature motif; other site 557722017051 Walker B; other site 557722017052 D-loop; other site 557722017053 H-loop/switch region; other site 557722017054 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557722017055 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 557722017056 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 557722017057 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 557722017058 HlyD family secretion protein; Region: HlyD_3; pfam13437 557722017059 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 557722017060 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557722017061 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 557722017062 NAD(P) binding site [chemical binding]; other site 557722017063 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 557722017064 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722017065 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722017066 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 557722017067 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 557722017068 catalytic loop [active] 557722017069 iron binding site [ion binding]; other site 557722017070 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 557722017071 FAD binding pocket [chemical binding]; other site 557722017072 FAD binding motif [chemical binding]; other site 557722017073 phosphate binding motif [ion binding]; other site 557722017074 beta-alpha-beta structure motif; other site 557722017075 NAD binding pocket [chemical binding]; other site 557722017076 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 557722017077 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557722017078 transcription termination factor Rho; Provisional; Region: rho; PRK09376 557722017079 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 557722017080 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 557722017081 RNA binding site [nucleotide binding]; other site 557722017082 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 557722017083 multimer interface [polypeptide binding]; other site 557722017084 Walker A motif; other site 557722017085 ATP binding site [chemical binding]; other site 557722017086 Walker B motif; other site 557722017087 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 557722017088 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557722017089 catalytic residues [active] 557722017090 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 557722017091 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557722017092 polyphosphate kinase; Provisional; Region: PRK05443 557722017093 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 557722017094 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 557722017095 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 557722017096 putative domain interface [polypeptide binding]; other site 557722017097 putative active site [active] 557722017098 catalytic site [active] 557722017099 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 557722017100 putative domain interface [polypeptide binding]; other site 557722017101 putative active site [active] 557722017102 catalytic site [active] 557722017103 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 557722017104 dimer interface [polypeptide binding]; other site 557722017105 active site 557722017106 aspartate-rich active site metal binding site; other site 557722017107 allosteric magnesium binding site [ion binding]; other site 557722017108 Schiff base residues; other site 557722017109 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557722017110 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557722017111 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 557722017112 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 557722017113 conserved cys residue [active] 557722017114 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 557722017115 CoenzymeA binding site [chemical binding]; other site 557722017116 subunit interaction site [polypeptide binding]; other site 557722017117 PHB binding site; other site 557722017118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 557722017119 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 557722017120 Cytochrome c; Region: Cytochrom_C; pfam00034 557722017121 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 557722017122 LysE type translocator; Region: LysE; cl00565 557722017123 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 557722017124 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557722017125 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557722017126 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 557722017127 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722017128 Walker A/P-loop; other site 557722017129 ATP binding site [chemical binding]; other site 557722017130 Q-loop/lid; other site 557722017131 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722017132 ABC transporter; Region: ABC_tran_2; pfam12848 557722017133 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557722017134 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 557722017135 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 557722017136 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557722017137 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 557722017138 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 557722017139 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 557722017140 HemY protein N-terminus; Region: HemY_N; pfam07219 557722017141 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 557722017142 binding surface 557722017143 TPR motif; other site 557722017144 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 557722017145 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 557722017146 uroporphyrinogen-III synthase; Validated; Region: PRK05752 557722017147 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 557722017148 active site 557722017149 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 557722017150 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 557722017151 domain interfaces; other site 557722017152 active site 557722017153 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 557722017154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722017155 active site 557722017156 phosphorylation site [posttranslational modification] 557722017157 intermolecular recognition site; other site 557722017158 dimerization interface [polypeptide binding]; other site 557722017159 LytTr DNA-binding domain; Region: LytTR; pfam04397 557722017160 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 557722017161 Histidine kinase; Region: His_kinase; pfam06580 557722017162 argininosuccinate lyase; Provisional; Region: PRK00855 557722017163 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 557722017164 active sites [active] 557722017165 tetramer interface [polypeptide binding]; other site 557722017166 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 557722017167 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 557722017168 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557722017169 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557722017170 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 557722017171 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 557722017172 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 557722017173 Cl binding site [ion binding]; other site 557722017174 oligomer interface [polypeptide binding]; other site 557722017175 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 557722017176 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 557722017177 substrate binding pocket [chemical binding]; other site 557722017178 membrane-bound complex binding site; other site 557722017179 hinge residues; other site 557722017180 TIGR02647 family protein; Region: DNA 557722017181 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 557722017182 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 557722017183 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 557722017184 Uncharacterized conserved protein [Function unknown]; Region: COG4278 557722017185 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 557722017186 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557722017187 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 557722017188 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 557722017189 putative iron binding site [ion binding]; other site 557722017190 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 557722017191 diaminopimelate decarboxylase; Region: lysA; TIGR01048 557722017192 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 557722017193 active site 557722017194 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557722017195 substrate binding site [chemical binding]; other site 557722017196 catalytic residues [active] 557722017197 dimer interface [polypeptide binding]; other site 557722017198 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 557722017199 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557722017200 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557722017201 Protein of unknown function, DUF484; Region: DUF484; pfam04340 557722017202 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 557722017203 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 557722017204 active site 557722017205 DNA binding site [nucleotide binding] 557722017206 Int/Topo IB signature motif; other site 557722017207 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 557722017208 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 557722017209 motif II; other site 557722017210 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 557722017211 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722017212 DNA-binding site [nucleotide binding]; DNA binding site 557722017213 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 557722017214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722017215 homodimer interface [polypeptide binding]; other site 557722017216 catalytic residue [active] 557722017217 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 557722017218 Uncharacterized conserved protein [Function unknown]; Region: COG0432 557722017219 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 557722017220 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 557722017221 Nitrogen regulatory protein P-II; Region: P-II; smart00938 557722017222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 557722017223 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 557722017224 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557722017225 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 557722017226 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 557722017227 BCCT family transporter; Region: BCCT; cl00569 557722017228 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557722017229 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557722017230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722017231 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 557722017232 dimerization interface [polypeptide binding]; other site 557722017233 substrate binding pocket [chemical binding]; other site 557722017234 multidrug efflux protein NorA; Provisional; Region: PRK00187 557722017235 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 557722017236 cation binding site [ion binding]; other site 557722017237 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722017238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722017239 metal binding site [ion binding]; metal-binding site 557722017240 active site 557722017241 I-site; other site 557722017242 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 557722017243 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 557722017244 Part of AAA domain; Region: AAA_19; pfam13245 557722017245 Family description; Region: UvrD_C_2; pfam13538 557722017246 pyruvate dehydrogenase; Provisional; Region: PRK09124 557722017247 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 557722017248 PYR/PP interface [polypeptide binding]; other site 557722017249 dimer interface [polypeptide binding]; other site 557722017250 tetramer interface [polypeptide binding]; other site 557722017251 TPP binding site [chemical binding]; other site 557722017252 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557722017253 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 557722017254 TPP-binding site [chemical binding]; other site 557722017255 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722017256 active site 557722017257 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 557722017258 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 557722017259 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 557722017260 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 557722017261 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 557722017262 non-specific DNA binding site [nucleotide binding]; other site 557722017263 salt bridge; other site 557722017264 sequence-specific DNA binding site [nucleotide binding]; other site 557722017265 Cupin domain; Region: Cupin_2; pfam07883 557722017266 alanine racemase; Reviewed; Region: dadX; PRK03646 557722017267 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 557722017268 active site 557722017269 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557722017270 substrate binding site [chemical binding]; other site 557722017271 catalytic residues [active] 557722017272 dimer interface [polypeptide binding]; other site 557722017273 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 557722017274 homotrimer interaction site [polypeptide binding]; other site 557722017275 putative active site [active] 557722017276 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 557722017277 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557722017278 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 557722017279 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 557722017280 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 557722017281 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557722017282 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 557722017283 putative DNA binding site [nucleotide binding]; other site 557722017284 putative Zn2+ binding site [ion binding]; other site 557722017285 AsnC family; Region: AsnC_trans_reg; pfam01037 557722017286 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722017287 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557722017288 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 557722017289 PLD-like domain; Region: PLDc_2; pfam13091 557722017290 putative active site [active] 557722017291 catalytic site [active] 557722017292 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 557722017293 PLD-like domain; Region: PLDc_2; pfam13091 557722017294 putative active site [active] 557722017295 catalytic site [active] 557722017296 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722017297 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557722017298 putative substrate translocation pore; other site 557722017299 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 557722017300 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 557722017301 NAD(P) binding site [chemical binding]; other site 557722017302 catalytic residues [active] 557722017303 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 557722017304 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 557722017305 inhibitor-cofactor binding pocket; inhibition site 557722017306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722017307 catalytic residue [active] 557722017308 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 557722017309 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 557722017310 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 557722017311 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557722017312 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557722017313 peptide binding site [polypeptide binding]; other site 557722017314 hypothetical protein; Reviewed; Region: PRK00024 557722017315 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 557722017316 MPN+ (JAMM) motif; other site 557722017317 Zinc-binding site [ion binding]; other site 557722017318 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 557722017319 Flavoprotein; Region: Flavoprotein; pfam02441 557722017320 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 557722017321 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557722017322 trimer interface [polypeptide binding]; other site 557722017323 active site 557722017324 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 557722017325 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 557722017326 active site 557722017327 substrate binding site [chemical binding]; other site 557722017328 metal binding site [ion binding]; metal-binding site 557722017329 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 557722017330 feedback inhibition sensing region; other site 557722017331 homohexameric interface [polypeptide binding]; other site 557722017332 nucleotide binding site [chemical binding]; other site 557722017333 N-acetyl-L-glutamate binding site [chemical binding]; other site 557722017334 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557722017335 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557722017336 SurA N-terminal domain; Region: SurA_N; pfam09312 557722017337 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722017338 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 557722017339 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 557722017340 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 557722017341 dimer interface [polypeptide binding]; other site 557722017342 active site 557722017343 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557722017344 substrate binding site [chemical binding]; other site 557722017345 catalytic residue [active] 557722017346 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 557722017347 FAD binding domain; Region: FAD_binding_4; pfam01565 557722017348 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 557722017349 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 557722017350 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 557722017351 active site 557722017352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557722017353 active site 557722017354 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 557722017355 putative active site [active] 557722017356 putative catalytic site [active] 557722017357 putative DNA binding site [nucleotide binding]; other site 557722017358 putative phosphate binding site [ion binding]; other site 557722017359 metal binding site A [ion binding]; metal-binding site 557722017360 putative AP binding site [nucleotide binding]; other site 557722017361 putative metal binding site B [ion binding]; other site 557722017362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 557722017363 ribonuclease PH; Reviewed; Region: rph; PRK00173 557722017364 Ribonuclease PH; Region: RNase_PH_bact; cd11362 557722017365 hexamer interface [polypeptide binding]; other site 557722017366 active site 557722017367 hypothetical protein; Provisional; Region: PRK11820 557722017368 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 557722017369 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 557722017370 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557722017371 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 557722017372 catalytic site [active] 557722017373 G-X2-G-X-G-K; other site 557722017374 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 557722017375 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 557722017376 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557722017377 Zn2+ binding site [ion binding]; other site 557722017378 Mg2+ binding site [ion binding]; other site 557722017379 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557722017380 synthetase active site [active] 557722017381 NTP binding site [chemical binding]; other site 557722017382 metal binding site [ion binding]; metal-binding site 557722017383 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 557722017384 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557722017385 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 557722017386 homotrimer interaction site [polypeptide binding]; other site 557722017387 putative active site [active] 557722017388 LysE type translocator; Region: LysE; cl00565 557722017389 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557722017390 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557722017391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722017392 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557722017393 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 557722017394 putative NAD(P) binding site [chemical binding]; other site 557722017395 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 557722017396 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722017397 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 557722017398 dimerization interface [polypeptide binding]; other site 557722017399 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 557722017400 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 557722017401 ssDNA binding site; other site 557722017402 generic binding surface II; other site 557722017403 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 557722017404 ATP binding site [chemical binding]; other site 557722017405 putative Mg++ binding site [ion binding]; other site 557722017406 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 557722017407 nucleotide binding region [chemical binding]; other site 557722017408 ATP-binding site [chemical binding]; other site 557722017409 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 557722017410 putative deacylase active site [active] 557722017411 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 557722017412 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 557722017413 IHF dimer interface [polypeptide binding]; other site 557722017414 IHF - DNA interface [nucleotide binding]; other site 557722017415 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 557722017416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557722017417 Rubredoxin [Energy production and conversion]; Region: COG1773 557722017418 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 557722017419 iron binding site [ion binding]; other site 557722017420 Rubredoxin [Energy production and conversion]; Region: COG1773 557722017421 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 557722017422 iron binding site [ion binding]; other site 557722017423 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 557722017424 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 557722017425 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 557722017426 Cysteine-rich domain; Region: CCG; pfam02754 557722017427 Cysteine-rich domain; Region: CCG; pfam02754 557722017428 FAD binding domain; Region: FAD_binding_4; pfam01565 557722017429 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 557722017430 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 557722017431 FAD binding domain; Region: FAD_binding_4; pfam01565 557722017432 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 557722017433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722017434 DNA-binding site [nucleotide binding]; DNA binding site 557722017435 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 557722017436 Chorismate lyase; Region: Chor_lyase; pfam04345 557722017437 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 557722017438 UbiA prenyltransferase family; Region: UbiA; pfam01040 557722017439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 557722017440 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 557722017441 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 557722017442 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 557722017443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722017444 active site 557722017445 phosphorylation site [posttranslational modification] 557722017446 intermolecular recognition site; other site 557722017447 dimerization interface [polypeptide binding]; other site 557722017448 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 557722017449 DNA binding site [nucleotide binding] 557722017450 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 557722017451 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557722017452 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 557722017453 putative active site [active] 557722017454 heme pocket [chemical binding]; other site 557722017455 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 557722017456 dimer interface [polypeptide binding]; other site 557722017457 phosphorylation site [posttranslational modification] 557722017458 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722017459 ATP binding site [chemical binding]; other site 557722017460 Mg2+ binding site [ion binding]; other site 557722017461 G-X-G motif; other site 557722017462 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557722017463 Domain of unknown function DUF21; Region: DUF21; pfam01595 557722017464 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 557722017465 Transporter associated domain; Region: CorC_HlyC; smart01091 557722017466 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 557722017467 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557722017468 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722017469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722017470 Response regulator receiver domain; Region: Response_reg; pfam00072 557722017471 active site 557722017472 phosphorylation site [posttranslational modification] 557722017473 intermolecular recognition site; other site 557722017474 dimerization interface [polypeptide binding]; other site 557722017475 transcriptional regulator PhoU; Provisional; Region: PRK11115 557722017476 PhoU domain; Region: PhoU; pfam01895 557722017477 PhoU domain; Region: PhoU; pfam01895 557722017478 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 557722017479 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 557722017480 Walker A/P-loop; other site 557722017481 ATP binding site [chemical binding]; other site 557722017482 Q-loop/lid; other site 557722017483 ABC transporter signature motif; other site 557722017484 Walker B; other site 557722017485 D-loop; other site 557722017486 H-loop/switch region; other site 557722017487 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 557722017488 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 557722017489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722017490 dimer interface [polypeptide binding]; other site 557722017491 conserved gate region; other site 557722017492 putative PBP binding loops; other site 557722017493 ABC-ATPase subunit interface; other site 557722017494 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 557722017495 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722017496 ABC-ATPase subunit interface; other site 557722017497 PBP superfamily domain; Region: PBP_like_2; cl17296 557722017498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722017499 metabolite-proton symporter; Region: 2A0106; TIGR00883 557722017500 putative substrate translocation pore; other site 557722017501 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 557722017502 choline dehydrogenase; Validated; Region: PRK02106 557722017503 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557722017504 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 557722017505 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 557722017506 tetrameric interface [polypeptide binding]; other site 557722017507 NAD binding site [chemical binding]; other site 557722017508 catalytic residues [active] 557722017509 transcriptional regulator BetI; Validated; Region: PRK00767 557722017510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557722017511 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 557722017512 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 557722017513 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 557722017514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557722017515 Walker A/P-loop; other site 557722017516 ATP binding site [chemical binding]; other site 557722017517 Q-loop/lid; other site 557722017518 ABC transporter signature motif; other site 557722017519 Walker B; other site 557722017520 D-loop; other site 557722017521 H-loop/switch region; other site 557722017522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722017523 dimer interface [polypeptide binding]; other site 557722017524 conserved gate region; other site 557722017525 putative PBP binding loops; other site 557722017526 ABC-ATPase subunit interface; other site 557722017527 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557722017528 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 557722017529 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 557722017530 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 557722017531 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 557722017532 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557722017533 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 557722017534 conserved cys residue [active] 557722017535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722017536 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 557722017537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722017538 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 557722017539 putative dimerization interface [polypeptide binding]; other site 557722017540 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 557722017541 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557722017542 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 557722017543 active site 557722017544 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 557722017545 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557722017546 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557722017547 Uncharacterized conserved protein [Function unknown]; Region: COG3246 557722017548 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 557722017549 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 557722017550 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 557722017551 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 557722017552 conserved cys residue [active] 557722017553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557722017554 acetylornithine deacetylase; Provisional; Region: PRK07522 557722017555 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 557722017556 metal binding site [ion binding]; metal-binding site 557722017557 putative dimer interface [polypeptide binding]; other site 557722017558 Uncharacterized conserved protein [Function unknown]; Region: COG3342 557722017559 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 557722017560 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 557722017561 homotrimer interaction site [polypeptide binding]; other site 557722017562 putative active site [active] 557722017563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722017564 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 557722017565 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 557722017566 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 557722017567 putative active site [active] 557722017568 catalytic site [active] 557722017569 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 557722017570 putative active site [active] 557722017571 catalytic site [active] 557722017572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 557722017573 SnoaL-like domain; Region: SnoaL_2; pfam12680 557722017574 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 557722017575 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 557722017576 active site 557722017577 V4R domain; Region: V4R; cl15268 557722017578 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 557722017579 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 557722017580 putative active site [active] 557722017581 putative FMN binding site [chemical binding]; other site 557722017582 putative substrate binding site [chemical binding]; other site 557722017583 putative catalytic residue [active] 557722017584 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557722017585 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 557722017586 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 557722017587 Cysteine-rich domain; Region: CCG; pfam02754 557722017588 Cysteine-rich domain; Region: CCG; pfam02754 557722017589 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 557722017590 Ligand Binding Site [chemical binding]; other site 557722017591 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 557722017592 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 557722017593 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 557722017594 Ligand Binding Site [chemical binding]; other site 557722017595 Electron transfer flavoprotein domain; Region: ETF; pfam01012 557722017596 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 557722017597 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 557722017598 non-specific DNA binding site [nucleotide binding]; other site 557722017599 salt bridge; other site 557722017600 sequence-specific DNA binding site [nucleotide binding]; other site 557722017601 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 557722017602 Cell division protein ZapA; Region: ZapA; pfam05164 557722017603 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 557722017604 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557722017605 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 557722017606 [2Fe-2S] cluster binding site [ion binding]; other site 557722017607 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 557722017608 putative alpha subunit interface [polypeptide binding]; other site 557722017609 putative active site [active] 557722017610 putative substrate binding site [chemical binding]; other site 557722017611 Fe binding site [ion binding]; other site 557722017612 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557722017613 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 557722017614 FAD binding pocket [chemical binding]; other site 557722017615 FAD binding motif [chemical binding]; other site 557722017616 phosphate binding motif [ion binding]; other site 557722017617 beta-alpha-beta structure motif; other site 557722017618 NAD binding pocket [chemical binding]; other site 557722017619 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 557722017620 catalytic loop [active] 557722017621 iron binding site [ion binding]; other site 557722017622 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 557722017623 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 557722017624 tetramer interface [polypeptide binding]; other site 557722017625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722017626 catalytic residue [active] 557722017627 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557722017628 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 557722017629 dimer interface [polypeptide binding]; other site 557722017630 active site 557722017631 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557722017632 folate binding site [chemical binding]; other site 557722017633 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 557722017634 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557722017635 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 557722017636 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 557722017637 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 557722017638 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 557722017639 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 557722017640 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 557722017641 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 557722017642 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 557722017643 putative active site [active] 557722017644 putative substrate binding site [chemical binding]; other site 557722017645 putative cosubstrate binding site; other site 557722017646 catalytic site [active] 557722017647 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 557722017648 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 557722017649 NAD binding site [chemical binding]; other site 557722017650 catalytic Zn binding site [ion binding]; other site 557722017651 structural Zn binding site [ion binding]; other site 557722017652 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 557722017653 active site 557722017654 phosphate binding residues; other site 557722017655 catalytic residues [active] 557722017656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3495 557722017657 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 557722017658 ATP-grasp domain; Region: ATP-grasp; pfam02222 557722017659 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 557722017660 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 557722017661 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 557722017662 NAD binding site [chemical binding]; other site 557722017663 substrate binding site [chemical binding]; other site 557722017664 catalytic Zn binding site [ion binding]; other site 557722017665 tetramer interface [polypeptide binding]; other site 557722017666 structural Zn binding site [ion binding]; other site 557722017667 cell density-dependent motility repressor; Provisional; Region: PRK10082 557722017668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722017669 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 557722017670 dimerization interface [polypeptide binding]; other site 557722017671 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 557722017672 Aspartase; Region: Aspartase; cd01357 557722017673 active sites [active] 557722017674 tetramer interface [polypeptide binding]; other site 557722017675 Predicted transporter component [General function prediction only]; Region: COG2391 557722017676 Sulphur transport; Region: Sulf_transp; pfam04143 557722017677 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 557722017678 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722017679 DNA-binding site [nucleotide binding]; DNA binding site 557722017680 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 557722017681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722017682 homodimer interface [polypeptide binding]; other site 557722017683 catalytic residue [active] 557722017684 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722017685 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557722017686 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722017687 tryptophan permease; Provisional; Region: PRK10483 557722017688 aromatic amino acid transport protein; Region: araaP; TIGR00837 557722017689 pyruvate carboxylase subunit B; Validated; Region: PRK09282 557722017690 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 557722017691 active site 557722017692 catalytic residues [active] 557722017693 metal binding site [ion binding]; metal-binding site 557722017694 homodimer binding site [polypeptide binding]; other site 557722017695 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 557722017696 carboxyltransferase (CT) interaction site; other site 557722017697 biotinylation site [posttranslational modification]; other site 557722017698 pyruvate carboxylase subunit A; Validated; Region: PRK07178 557722017699 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557722017700 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557722017701 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557722017702 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557722017703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557722017704 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 557722017705 putative dimerization interface [polypeptide binding]; other site 557722017706 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 557722017707 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557722017708 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 557722017709 putative active site [active] 557722017710 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 557722017711 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 557722017712 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 557722017713 putative protease; Provisional; Region: PRK15452 557722017714 Peptidase family U32; Region: Peptidase_U32; pfam01136 557722017715 PAS fold; Region: PAS_3; pfam08447 557722017716 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 557722017717 heme pocket [chemical binding]; other site 557722017718 putative active site [active] 557722017719 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 557722017720 PAS domain; Region: PAS_9; pfam13426 557722017721 putative active site [active] 557722017722 heme pocket [chemical binding]; other site 557722017723 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722017724 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722017725 metal binding site [ion binding]; metal-binding site 557722017726 active site 557722017727 I-site; other site 557722017728 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 557722017729 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 557722017730 Part of AAA domain; Region: AAA_19; pfam13245 557722017731 Family description; Region: UvrD_C_2; pfam13538 557722017732 Predicted membrane protein [Function unknown]; Region: COG2510 557722017733 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 557722017734 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 557722017735 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 557722017736 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 557722017737 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722017738 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 557722017739 putative ADP-binding pocket [chemical binding]; other site 557722017740 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 557722017741 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722017742 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 557722017743 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722017744 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 557722017745 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 557722017746 Walker A/P-loop; other site 557722017747 ATP binding site [chemical binding]; other site 557722017748 Q-loop/lid; other site 557722017749 ABC transporter signature motif; other site 557722017750 Walker B; other site 557722017751 D-loop; other site 557722017752 H-loop/switch region; other site 557722017753 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 557722017754 putative carbohydrate binding site [chemical binding]; other site 557722017755 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 557722017756 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 557722017757 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 557722017758 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 557722017759 Substrate binding site; other site 557722017760 Cupin domain; Region: Cupin_2; cl17218 557722017761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722017762 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 557722017763 NAD(P) binding site [chemical binding]; other site 557722017764 active site 557722017765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722017766 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 557722017767 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 557722017768 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557722017769 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 557722017770 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557722017771 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722017772 S-adenosylmethionine binding site [chemical binding]; other site 557722017773 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 557722017774 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 557722017775 Methyltransferase domain; Region: Methyltransf_11; pfam08241 557722017776 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 557722017777 conserverd hypothetical protein; Region: TIGR02448 557722017778 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 557722017779 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 557722017780 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 557722017781 Uncharacterized conserved protein [Function unknown]; Region: COG3791 557722017782 Predicted permeases [General function prediction only]; Region: COG0679 557722017783 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 557722017784 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 557722017785 Citrate transporter; Region: CitMHS; pfam03600 557722017786 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 557722017787 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 557722017788 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 557722017789 hypothetical protein; Reviewed; Region: PRK09588 557722017790 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 557722017791 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557722017792 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 557722017793 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 557722017794 PhoU domain; Region: PhoU; pfam01895 557722017795 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557722017796 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557722017797 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557722017798 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557722017799 citrate-proton symporter; Provisional; Region: PRK15075 557722017800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722017801 putative substrate translocation pore; other site 557722017802 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 557722017803 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 557722017804 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 557722017805 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 557722017806 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557722017807 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 557722017808 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722017809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722017810 active site 557722017811 phosphorylation site [posttranslational modification] 557722017812 intermolecular recognition site; other site 557722017813 dimerization interface [polypeptide binding]; other site 557722017814 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722017815 Walker A motif; other site 557722017816 ATP binding site [chemical binding]; other site 557722017817 Walker B motif; other site 557722017818 arginine finger; other site 557722017819 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 557722017820 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 557722017821 dimerization interface [polypeptide binding]; other site 557722017822 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557722017823 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 557722017824 putative active site [active] 557722017825 heme pocket [chemical binding]; other site 557722017826 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 557722017827 dimer interface [polypeptide binding]; other site 557722017828 phosphorylation site [posttranslational modification] 557722017829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722017830 ATP binding site [chemical binding]; other site 557722017831 Mg2+ binding site [ion binding]; other site 557722017832 G-X-G motif; other site 557722017833 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 557722017834 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 557722017835 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 557722017836 amidase catalytic site [active] 557722017837 Zn binding residues [ion binding]; other site 557722017838 substrate binding site [chemical binding]; other site 557722017839 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 557722017840 MarC family integral membrane protein; Region: MarC; cl00919 557722017841 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557722017842 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557722017843 metal binding site [ion binding]; metal-binding site 557722017844 active site 557722017845 I-site; other site 557722017846 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 557722017847 putative catalytic site [active] 557722017848 putative metal binding site [ion binding]; other site 557722017849 putative phosphate binding site [ion binding]; other site 557722017850 putative catalytic site [active] 557722017851 putative phosphate binding site [ion binding]; other site 557722017852 putative metal binding site [ion binding]; other site 557722017853 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 557722017854 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 557722017855 catalytic residues [active] 557722017856 hinge region; other site 557722017857 alpha helical domain; other site 557722017858 Cytochrome c553 [Energy production and conversion]; Region: COG2863 557722017859 Cytochrome c; Region: Cytochrom_C; cl11414 557722017860 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 557722017861 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 557722017862 G1 box; other site 557722017863 GTP/Mg2+ binding site [chemical binding]; other site 557722017864 Switch I region; other site 557722017865 G2 box; other site 557722017866 G3 box; other site 557722017867 Switch II region; other site 557722017868 G4 box; other site 557722017869 G5 box; other site 557722017870 DNA polymerase I; Provisional; Region: PRK05755 557722017871 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 557722017872 active site 557722017873 metal binding site 1 [ion binding]; metal-binding site 557722017874 putative 5' ssDNA interaction site; other site 557722017875 metal binding site 3; metal-binding site 557722017876 metal binding site 2 [ion binding]; metal-binding site 557722017877 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 557722017878 putative DNA binding site [nucleotide binding]; other site 557722017879 putative metal binding site [ion binding]; other site 557722017880 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 557722017881 active site 557722017882 catalytic site [active] 557722017883 substrate binding site [chemical binding]; other site 557722017884 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 557722017885 active site 557722017886 DNA binding site [nucleotide binding] 557722017887 catalytic site [active] 557722017888 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 557722017889 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 557722017890 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 557722017891 putative active site [active] 557722017892 putative substrate binding site [chemical binding]; other site 557722017893 ATP binding site [chemical binding]; other site 557722017894 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 557722017895 TSCPD domain; Region: TSCPD; pfam12637 557722017896 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 557722017897 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 557722017898 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 557722017899 active site 557722017900 dimer interface [polypeptide binding]; other site 557722017901 effector binding site; other site 557722017902 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 557722017903 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 557722017904 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 557722017905 metal binding site [ion binding]; metal-binding site 557722017906 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557722017907 Predicted transcriptional regulators [Transcription]; Region: COG1695 557722017908 metal binding site 2 [ion binding]; metal-binding site 557722017909 putative DNA binding helix; other site 557722017910 metal binding site 1 [ion binding]; metal-binding site 557722017911 dimer interface [polypeptide binding]; other site 557722017912 structural Zn2+ binding site [ion binding]; other site 557722017913 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 557722017914 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557722017915 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557722017916 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 557722017917 dimer interface [polypeptide binding]; other site 557722017918 putative PBP binding regions; other site 557722017919 ABC-ATPase subunit interface; other site 557722017920 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 557722017921 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 557722017922 Walker A/P-loop; other site 557722017923 ATP binding site [chemical binding]; other site 557722017924 Q-loop/lid; other site 557722017925 ABC transporter signature motif; other site 557722017926 Walker B; other site 557722017927 D-loop; other site 557722017928 H-loop/switch region; other site 557722017929 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 557722017930 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557722017931 dimer interface [polypeptide binding]; other site 557722017932 conserved gate region; other site 557722017933 ABC-ATPase subunit interface; other site 557722017934 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557722017935 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557722017936 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 557722017937 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557722017938 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 557722017939 putative active site [active] 557722017940 Isochorismatase family; Region: Isochorismatase; pfam00857 557722017941 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 557722017942 catalytic triad [active] 557722017943 conserved cis-peptide bond; other site 557722017944 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557722017945 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722017946 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 557722017947 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557722017948 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557722017949 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 557722017950 active site 557722017951 phosphorylation site [posttranslational modification] 557722017952 intermolecular recognition site; other site 557722017953 dimerization interface [polypeptide binding]; other site 557722017954 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 557722017955 Walker A motif; other site 557722017956 ATP binding site [chemical binding]; other site 557722017957 Walker B motif; other site 557722017958 arginine finger; other site 557722017959 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 557722017960 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 557722017961 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 557722017962 dimer interface [polypeptide binding]; other site 557722017963 phosphorylation site [posttranslational modification] 557722017964 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 557722017965 ATP binding site [chemical binding]; other site 557722017966 Mg2+ binding site [ion binding]; other site 557722017967 G-X-G motif; other site 557722017968 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557722017969 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557722017970 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 557722017971 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 557722017972 pyridoxamine kinase; Validated; Region: PRK05756 557722017973 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 557722017974 pyridoxal binding site [chemical binding]; other site 557722017975 dimer interface [polypeptide binding]; other site 557722017976 ATP binding site [chemical binding]; other site 557722017977 Predicted membrane protein [Function unknown]; Region: COG1238 557722017978 putative cation:proton antiport protein; Provisional; Region: PRK10669 557722017979 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 557722017980 TrkA-N domain; Region: TrkA_N; pfam02254 557722017981 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 557722017982 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557722017983 classical (c) SDRs; Region: SDR_c; cd05233 557722017984 NAD(P) binding site [chemical binding]; other site 557722017985 active site 557722017986 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557722017987 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557722017988 aminotransferase; Validated; Region: PRK07046 557722017989 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 557722017990 inhibitor-cofactor binding pocket; inhibition site 557722017991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557722017992 catalytic residue [active] 557722017993 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557722017994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557722017995 NAD(P) binding site [chemical binding]; other site 557722017996 active site 557722017997 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557722017998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557722017999 DNA-binding site [nucleotide binding]; DNA binding site 557722018000 FCD domain; Region: FCD; pfam07729 557722018001 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 557722018002 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 557722018003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 557722018004 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557722018005 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 557722018006 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 557722018007 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722018008 putative substrate translocation pore; other site 557722018009 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 557722018010 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 557722018011 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 557722018012 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 557722018013 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 557722018014 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 557722018015 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 557722018016 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 557722018017 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 557722018018 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 557722018019 AMIN domain; Region: AMIN; pfam11741 557722018020 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 557722018021 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 557722018022 active site 557722018023 metal binding site [ion binding]; metal-binding site 557722018024 putative GTP cyclohydrolase; Provisional; Region: PRK13674 557722018025 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 557722018026 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 557722018027 trimer interface [polypeptide binding]; other site 557722018028 active site 557722018029 dihydroorotase; Reviewed; Region: PRK09236 557722018030 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 557722018031 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 557722018032 active site 557722018033 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557722018034 Beta-lactamase; Region: Beta-lactamase; pfam00144 557722018035 Uncharacterized conserved protein [Function unknown]; Region: COG4729 557722018036 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 557722018037 DctM-like transporters; Region: DctM; pfam06808 557722018038 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 557722018039 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 557722018040 substrate binding pocket [chemical binding]; other site 557722018041 membrane-bound complex binding site; other site 557722018042 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 557722018043 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 557722018044 S-adenosylmethionine binding site [chemical binding]; other site 557722018045 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557722018046 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 557722018047 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557722018048 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 557722018049 putative substrate translocation pore; other site 557722018050 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 557722018051 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 557722018052 glutaminase active site [active] 557722018053 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 557722018054 dimer interface [polypeptide binding]; other site 557722018055 active site 557722018056 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 557722018057 dimer interface [polypeptide binding]; other site 557722018058 active site 557722018059 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 557722018060 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 557722018061 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557722018062 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557722018063 Peptidase family M23; Region: Peptidase_M23; pfam01551 557722018064 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 557722018065 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 557722018066 Substrate binding site; other site 557722018067 Mg++ binding site; other site 557722018068 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 557722018069 active site 557722018070 substrate binding site [chemical binding]; other site 557722018071 CoA binding site [chemical binding]; other site 557722018072 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 557722018073 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 557722018074 gamma subunit interface [polypeptide binding]; other site 557722018075 epsilon subunit interface [polypeptide binding]; other site 557722018076 LBP interface [polypeptide binding]; other site 557722018077 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 557722018078 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557722018079 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 557722018080 alpha subunit interaction interface [polypeptide binding]; other site 557722018081 Walker A motif; other site 557722018082 ATP binding site [chemical binding]; other site 557722018083 Walker B motif; other site 557722018084 inhibitor binding site; inhibition site 557722018085 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557722018086 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 557722018087 core domain interface [polypeptide binding]; other site 557722018088 delta subunit interface [polypeptide binding]; other site 557722018089 epsilon subunit interface [polypeptide binding]; other site 557722018090 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 557722018091 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557722018092 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 557722018093 beta subunit interaction interface [polypeptide binding]; other site 557722018094 Walker A motif; other site 557722018095 ATP binding site [chemical binding]; other site 557722018096 Walker B motif; other site 557722018097 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557722018098 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 557722018099 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 557722018100 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 557722018101 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 557722018102 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 557722018103 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 557722018104 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 557722018105 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 557722018106 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 557722018107 ParB-like nuclease domain; Region: ParBc; pfam02195 557722018108 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557722018109 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 557722018110 P-loop; other site 557722018111 Magnesium ion binding site [ion binding]; other site 557722018112 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 557722018113 Magnesium ion binding site [ion binding]; other site 557722018114 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 557722018115 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 557722018116 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 557722018117 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 557722018118 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 557722018119 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 557722018120 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 557722018121 trmE is a tRNA modification GTPase; Region: trmE; cd04164 557722018122 G1 box; other site 557722018123 GTP/Mg2+ binding site [chemical binding]; other site 557722018124 Switch I region; other site 557722018125 G2 box; other site 557722018126 Switch II region; other site 557722018127 G3 box; other site 557722018128 G4 box; other site 557722018129 G5 box; other site 557722018130 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 557722018131 membrane protein insertase; Provisional; Region: PRK01318 557722018132 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 557722018133 ribonuclease P; Reviewed; Region: rnpA; PRK00396